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
CPSF3L	54973	broad.mit.edu	37	1	1254740	1254740	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:1254740G>C	uc001aee.1	-	4	423	c.365C>G	c.(364-366)ACC>AGC	p.T122S	CPSF3L_uc009vjy.1_5'Flank|CPSF3L_uc001aef.1_Missense_Mutation_p.T128S|CPSF3L_uc009vjz.1_Missense_Mutation_p.T122S|CPSF3L_uc010nyj.1_Missense_Mutation_p.T93S|CPSF3L_uc001aeg.1_5'UTR|CPSF3L_uc001aeh.1_Intron|CPSF3L_uc001aei.1_Intron|CPSF3L_uc001aej.1_Intron|CPSF3L_uc001aek.1_Intron|CPSF3L_uc001aem.1_Missense_Mutation_p.T122S|CPSF3L_uc001ael.1_Missense_Mutation_p.T40S|CPSF3L_uc001aen.1_3'UTR	NM_017871	NP_060341	Q5TA45	INT11_HUMAN	cleavage and polyadenylation specific factor	122						Golgi apparatus|nucleus	hydrolase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(86;4.35e-21)|Colorectal(212;0.000166)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.00235)|BRCA - Breast invasive adenocarcinoma(365;0.00255)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0349)|Lung(427;0.201)		CATCTGGGAGGTGAAGAAGTT	0.587													22	119					0	0	0.002780	0	0	
TAS1R3	83756	broad.mit.edu	37	1	1268097	1268097	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:1268097G>A	uc010nyk.1	+	3	1186	c.1186G>A	c.(1186-1188)GCT>ACT	p.A396T		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	396	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)	Aspartame(DB00168)	TGTCTACGCAGCTGTGTATAG	0.652													5	23					0	0	0.000602	0	0	
CCNL2	81669	broad.mit.edu	37	1	1322784	1322784	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:1322784G>A	uc001afi.2	-	11	1422	c.1390C>T	c.(1390-1392)CGG>TGG	p.R464W	CCNL2_uc010nym.1_RNA|CCNL2_uc001aff.1_Missense_Mutation_p.R242W|CCNL2_uc001afg.1_Missense_Mutation_p.R242W|CCNL2_uc001afh.2_3'UTR|CCNL2_uc001afj.2_3'UTR|CCNL2_uc001afk.2_3'UTR	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A	464					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		GAAGAACTCCGGCTCCGAGAC	0.577													9	52					0	0	0.008291	0	0	
KIAA1751	85452	broad.mit.edu	37	1	1916826	1916826	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:1916826C>T	uc001aim.1	-	6	655	c.499G>A	c.(499-501)GAG>AAG	p.E167K	KIAA1751_uc009vkz.1_Missense_Mutation_p.E167K|KIAA1751_uc001ain.1_Missense_Mutation_p.E167K	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	167										pancreas(1)	1	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		CCGACTCACTCGCTCTCCTTC	0.647													13	46					0	0	0.001368	0	0	
EXOSC10	5394	broad.mit.edu	37	1	11140856	11140856	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:11140856C>A	uc001asa.2	-	12	1601	c.1551G>T	c.(1549-1551)AGG>AGT	p.R517S	EXOSC10_uc001asb.2_Missense_Mutation_p.R517S|EXOSC10_uc009vmy.1_Missense_Mutation_p.R517S	NM_001001998	NP_001001998	Q01780	EXOSX_HUMAN	exosome component 10 isoform 1	517	HRDC.				CUT catabolic process|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear polyadenylation-dependent rRNA catabolic process|nuclear retention of unspliced pre-mRNA at the site of transcription|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasm|nuclear exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5' exonuclease activity|exoribonuclease activity|identical protein binding|nucleotide binding|protein serine/threonine kinase activity|RNA binding			upper_aerodigestive_tract(1)	1	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.18e-07)|COAD - Colon adenocarcinoma(227;8.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000315)|Kidney(185;0.000832)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|READ - Rectum adenocarcinoma(331;0.0526)|STAD - Stomach adenocarcinoma(313;0.202)		CTGTTTTATCCCTCCAGGCAA	0.428													5	80					0.000602214	0.000634503	0.000602	1	0	
SPEN	23013	broad.mit.edu	37	1	16257086	16257086	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:16257086G>A	uc001axk.1	+	11	4555	c.4351G>A	c.(4351-4353)GCT>ACT	p.A1451T	SPEN_uc010obp.1_Missense_Mutation_p.A1410T	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1451					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GCTTGAAAGAGCTAAATCCCT	0.363													7	83					0	0	0.003080	0	0	
UBR4	23352	broad.mit.edu	37	1	19439224	19439224	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:19439224G>A	uc001bbi.2	-	78	11599	c.11595C>T	c.(11593-11595)GGC>GGT	p.G3865G	UBR4_uc001bbj.1_3'UTR	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3865					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		AGGATGTGTGGCCACAGCCCA	0.592													30	150					0	0	0.006320	0	0	
PLA2G2E	30814	broad.mit.edu	37	1	20249189	20249189	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:20249189T>G	uc001bct.1	-	2	158	c.100A>C	c.(100-102)AAG>CAG	p.K34Q		NM_014589	NP_055404	Q9NZK7	PA2GE_HUMAN	phospholipase A2, group IIE precursor	34					inflammatory response|lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|phospholipase A2 activity				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|GBM - Glioblastoma multiforme(114;0.000146)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		AGGGCGGACTTGCCTGTCATC	0.532													10	64					0	0	0.008291	0	0	
NBPF3	84224	broad.mit.edu	37	1	21800060	21800060	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:21800060G>A	uc001ber.2	+	7	1272	c.922G>A	c.(922-924)GCT>ACT	p.A308T	NBPF3_uc001bes.2_Missense_Mutation_p.A252T|NBPF3_uc009vqb.2_Missense_Mutation_p.A308T|NBPF3_uc010odm.1_Missense_Mutation_p.A238T	NM_032264	NP_115640	Q9H094	NBPF3_HUMAN	neuroblastoma breakpoint family, member 3	308	NBPF 1.					cytoplasm				upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(284;2.16e-05)|Lung NSC(340;2.19e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|OV - Ovarian serous cystadenocarcinoma(117;7.53e-27)|COAD - Colon adenocarcinoma(152;1.18e-05)|GBM - Glioblastoma multiforme(114;3.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000143)|STAD - Stomach adenocarcinoma(196;0.00306)|KIRC - Kidney renal clear cell carcinoma(1967;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		ATGGTTGGATGCTGTATGCAT	0.443													33	155					0	0	0.002445	0	0	
HSPG2	3339	broad.mit.edu	37	1	22216485	22216485	+	Missense_Mutation	SNP	C	T	T	rs145847147		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:22216485C>T	uc001bfj.2	-	6	603	c.563G>A	c.(562-564)CGC>CAC	p.R188H	HSPG2_uc009vqd.2_Missense_Mutation_p.R188H|HSPG2_uc009vqe.1_Missense_Mutation_p.A87T	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	188	SEA.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TGTGCCCAGGCGTCGGAACTG	0.473													8	48					0	0	0.003080	0	0	
PAQR7	164091	broad.mit.edu	37	1	26189365	26189365	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:26189365C>T	uc001bkx.2	-	2	1633	c.966G>A	c.(964-966)ACG>ACA	p.T322T		NM_178422	NP_848509	Q86WK9	MPRA_HUMAN	progestin and adipoQ receptor family member VII	322	Helical; Name=7; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding			breast(3)	3		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.16e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000724)|BRCA - Breast invasive adenocarcinoma(304;0.000965)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0136)|READ - Rectum adenocarcinoma(331;0.0649)		TGCTGCCCACCGTGAGCAGGA	0.587													7	47					0	0	0.001984	0	0	
ARID1A	8289	broad.mit.edu	37	1	27099914	27099914	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:27099914G>A	uc001bmv.1	+	15	4166	c.3793G>A	c.(3793-3795)GGC>AGC	p.G1265S	ARID1A_uc001bmt.1_Missense_Mutation_p.G1264S|ARID1A_uc001bmu.1_Missense_Mutation_p.G1265S|ARID1A_uc001bmw.1_Missense_Mutation_p.G882S|ARID1A_uc001bmx.1_Missense_Mutation_p.G111S|ARID1A_uc009vsm.1_5'UTR|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1265					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TCGTGCTGCCGGCCCTGGGCT	0.607			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								7	41					0	0	0.001984	0	0	
ZDHHC18	84243	broad.mit.edu	37	1	27180234	27180234	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:27180234G>T	uc001bnb.2	+	8	1162	c.1067G>T	c.(1066-1068)GGA>GTA	p.G356V		NM_032283	NP_115659	Q9NUE0	ZDH18_HUMAN	zinc finger, DHHC-type containing 18	356						integral to membrane	zinc ion binding				0		all_cancers(24;5.82e-22)|all_epithelial(13;9.91e-20)|Colorectal(325;0.000147)|Breast(348;0.000706)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;5.71e-53)|Epithelial(14;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(117;1.53e-29)|Colorectal(126;1.9e-09)|COAD - Colon adenocarcinoma(152;4.2e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000548)|STAD - Stomach adenocarcinoma(196;0.00065)|KIRC - Kidney renal clear cell carcinoma(1967;0.000779)|GBM - Glioblastoma multiforme(114;0.0265)|READ - Rectum adenocarcinoma(331;0.0455)|Lung(427;0.163)|LUSC - Lung squamous cell carcinoma(448;0.237)		GACCGGAGGGGATTTGTGCAG	0.587											OREG0013274	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	180					1.5739e-10	1.78996e-10	0.004007	1	0	
DNAJC8	22826	broad.mit.edu	37	1	28537141	28537141	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:28537141A>G	uc001bpn.2	-	4	278	c.245T>C	c.(244-246)ATC>ACC	p.I82T	DNAJC8_uc001bpo.2_RNA	NM_014280	NP_055095	O75937	DNJC8_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 8	82	J.				nuclear mRNA splicing, via spliceosome|protein folding	nucleoplasm	heat shock protein binding|unfolded protein binding				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.08e-05)|all_lung(284;4.29e-05)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.0105)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		OV - Ovarian serous cystadenocarcinoma(117;2.81e-22)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00275)|BRCA - Breast invasive adenocarcinoma(304;0.0059)|STAD - Stomach adenocarcinoma(196;0.00671)|READ - Rectum adenocarcinoma(331;0.0649)		ATGCACCAAGATGGATAACTA	0.388													16	76					0	0	0.007413	0	0	
HDAC1	3065	broad.mit.edu	37	1	32792620	32792620	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:32792620G>A	uc001bvb.1	+	5	499	c.436G>A	c.(436-438)GAG>AAG	p.E146K	HDAC1_uc010ohd.1_Missense_Mutation_p.E146K|HDAC1_uc010ohe.1_Missense_Mutation_p.E83K|HDAC1_uc010ohf.1_Missense_Mutation_p.E117K|HDAC1_uc001bvc.1_5'Flank	NM_004964	NP_004955	Q13547	HDAC1_HUMAN	histone deacetylase 1	146	Histone deacetylase.				anti-apoptosis|blood coagulation|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|histone H3 deacetylation|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of androgen receptor signaling pathway|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytosol|NuRD complex|Sin3 complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|identical protein binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|RNA polymerase II transcription corepressor activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)	3		Breast(348;0.000523)|Lung NSC(340;0.000992)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Lung SC(1967;0.113)		KIRC - Kidney renal clear cell carcinoma(1967;0.138)	Vorinostat(DB02546)	AAAGAAGTCCGAGGCATCTGG	0.512													11	57					0	0	0.008291	0	0	
CSMD2	114784	broad.mit.edu	37	1	34383709	34383709	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:34383709T>G	uc001bxn.1	-	5	815	c.786A>C	c.(784-786)GAA>GAC	p.E262D	CSMD2_uc001bxm.1_Missense_Mutation_p.E302D	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	262	CUB 2.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GGGAGGAGCCTTCTGTCCCAG	0.532													3	26					0	0	0.004672	0	0	
GJB3	2707	broad.mit.edu	37	1	35250931	35250931	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:35250931T>A	uc001bxx.2	+	2	1183	c.568T>A	c.(568-570)TTC>ATC	p.F190I	GJB3_uc001bxy.2_Missense_Mutation_p.F190I|GJB3_uc001bxz.3_Missense_Mutation_p.F190I|uc010ohs.1_RNA	NM_024009	NP_076872	O75712	CXB3_HUMAN	connexin 31	190	Helical; (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				CTTCACCTACTTCATGGTGGG	0.597													10	71					0	0	0.006214	0	0	
EIF2C4	192670	broad.mit.edu	37	1	36306953	36306953	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:36306953C>T	uc001bzj.1	+	14	2102	c.1912C>T	c.(1912-1914)CAA>TAA	p.Q638*		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	638	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CCTCTACAGTCAAGAGGTCAT	0.547													12	40					0	0	0.000978	0	0	
ADPRHL2	54936	broad.mit.edu	37	1	36558733	36558733	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:36558733G>A	uc001bzt.2	+	6	891	c.838G>A	c.(838-840)GCC>ACC	p.A280T	ADPRHL2_uc001bzu.2_Missense_Mutation_p.A126T	NM_017825	NP_060295	Q9NX46	ARHL2_HUMAN	ADP-ribosylhydrolase like 2	280						cytoplasm|nucleus	metal ion binding|poly(ADP-ribose) glycohydrolase activity			pancreas(1)	1		Myeloproliferative disorder(586;0.0393)				GGTACCCACCGCCATCTACTG	0.547													15	51					0	0	0.002450	0	0	
SCMH1	22955	broad.mit.edu	37	1	41608726	41608726	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:41608726G>T	uc001cgo.2	-	6	517	c.206C>A	c.(205-207)CCC>CAC	p.P69H	SCMH1_uc010ojr.1_Missense_Mutation_p.P22H|SCMH1_uc001cgp.2_Missense_Mutation_p.P8H|SCMH1_uc001cgr.2_Missense_Mutation_p.P8H|SCMH1_uc001cgs.2_Missense_Mutation_p.P79H|SCMH1_uc001cgt.2_Missense_Mutation_p.P8H|SCMH1_uc001cgq.2_Missense_Mutation_p.P22H|SCMH1_uc010ojs.1_RNA	NM_001031694	NP_001026864	Q96GD3	SCMH1_HUMAN	sex comb on midleg 1 isoform 1	69	MBT 1.				anatomical structure morphogenesis|gene silencing|multicellular organismal development|negative regulation of transcription, DNA-dependent		DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)|Breast(333;0.162)	Myeloproliferative disorder(586;0.0393)				GGTGTTCCTGGGGTCCTGTGC	0.493													13	81					7.93312e-07	8.75129e-07	0.002450	1	0	
FOXJ3	22887	broad.mit.edu	37	1	42657010	42657010	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:42657010C>A	uc001che.2	-	11	1627	c.1315G>T	c.(1315-1317)GCA>TCA	p.A439S	FOXJ3_uc001chf.2_Missense_Mutation_p.A439S|FOXJ3_uc001chg.2_Missense_Mutation_p.A439S|FOXJ3_uc001chh.1_Missense_Mutation_p.A405S	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	439					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GGTGGGGGTGCCTGATGTGTT	0.493													9	51					1.76689e-08	1.98014e-08	0.006214	1	0	
CLDN19	149461	broad.mit.edu	37	1	43204117	43204117	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:43204117G>A	uc001cht.1	-	2	554	c.363C>T	c.(361-363)GCC>GCT	p.A121A	CLDN19_uc001chu.2_Silent_p.A121A|CLDN19_uc010ojv.1_Silent_p.A121A	NM_148960	NP_683763	Q8N6F1	CLD19_HUMAN	claudin 19 isoform a	121	Helical; (Potential).				calcium-independent cell-cell adhesion|response to stimulus|visual perception	basolateral plasma membrane|integral to membrane|tight junction	identical protein binding				0	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GGGCTCCCCCGGCGATGGCAA	0.652													4	32					0	0	0.009096	0	0	
TIE1	7075	broad.mit.edu	37	1	43775113	43775113	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:43775113C>T	uc001ciu.2	+	9	1322	c.1243C>T	c.(1243-1245)CGC>TGC	p.R415C	TIE1_uc010okd.1_Missense_Mutation_p.R415C|TIE1_uc010oke.1_Missense_Mutation_p.R370C|TIE1_uc009vwq.2_Missense_Mutation_p.R371C|TIE1_uc010okf.1_Missense_Mutation_p.R60C|TIE1_uc010okg.1_Missense_Mutation_p.R60C|TIE1_uc010okc.1_3'UTR	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	415	Ig-like C2-type 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CGAGGTGCCCCGCTTGGTTCT	0.587													7	40					0	0	0.003080	0	0	
TESK2	10420	broad.mit.edu	37	1	45810622	45810622	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:45810622C>T	uc001cns.1	-	11	2009	c.1606G>A	c.(1606-1608)GCG>ACG	p.A536T	TESK2_uc009vxr.1_Missense_Mutation_p.A507T|TESK2_uc010olo.1_Missense_Mutation_p.A453T|TESK2_uc009vxs.1_Missense_Mutation_p.A328T	NM_007170	NP_009101	Q96S53	TESK2_HUMAN	testis-specific protein kinase 2	536					actin cytoskeleton organization|focal adhesion assembly|spermatogenesis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(2)|pancreas(1)	5	Acute lymphoblastic leukemia(166;0.155)					GAAGCACCCGCAGGGCATGGA	0.582													11	58					0	0	0.008291	0	0	
KIAA0494	9813	broad.mit.edu	37	1	47144205	47144205	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:47144205G>T	uc001cqk.3	-	11	2393	c.1416C>A	c.(1414-1416)AGC>AGA	p.S472R	KIAA0494_uc010omh.1_Intron|KIAA0494_uc010omj.1_Missense_Mutation_p.S264R	NM_014774	NP_055589	O75071	K0494_HUMAN	hypothetical protein LOC9813	472	EF-hand 2.						calcium ion binding				0	Acute lymphoblastic leukemia(166;0.155)					ATGCTCTCAAGCTCTCTGGTT	0.473													8	73					5.18039e-06	5.66291e-06	0.003080	1	0	
CYP4B1	1580	broad.mit.edu	37	1	47279221	47279221	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:47279221C>T	uc001cqm.3	+	5	647	c.563C>T	c.(562-564)GCG>GTG	p.A188V	CYP4B1_uc009vyl.1_Missense_Mutation_p.A25V|CYP4B1_uc001cqn.3_Missense_Mutation_p.A188V|CYP4B1_uc009vym.2_Missense_Mutation_p.A173V|CYP4B1_uc010omk.1_Missense_Mutation_p.A25V|CYP4B1_uc010oml.1_Missense_Mutation_p.A25V	NM_000779	NP_000770	P13584	CP4B1_HUMAN	cytochrome P450, family 4, subfamily B,	188					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					GGTCACATGGCGCTGAACACA	0.572													6	35					0	0	0.001168	0	0	
CYP4A22	284541	broad.mit.edu	37	1	47607809	47607809	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:47607809A>C	uc001cqv.1	+	4	463	c.412A>C	c.(412-414)ACA>CCA	p.T138P	CYP4A22_uc009vyo.2_Missense_Mutation_p.T138P|CYP4A22_uc009vyp.2_Missense_Mutation_p.T138P	NM_001010969	NP_001010969	Q5TCH4	CP4AM_HUMAN	cytochrome P450, family 4, subfamily A,	138						endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding			skin(2)|ovary(1)|breast(1)	4						GAATGGGCAGACATGGTTCCA	0.532													12	46					0	0	0.000978	0	0	
CDCP2	200008	broad.mit.edu	37	1	54607090	54607090	+	Silent	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:54607090G>C	uc001cwv.1	-	3	1292	c.444C>G	c.(442-444)GTC>GTG	p.V148V		NM_201546	NP_963840	Q5VXM1	CDCP2_HUMAN	CUB domain containing protein 2 precursor	148	CUB 2.					extracellular region				ovary(1)	1						GGCCAGTCAGGACGCCGCCAC	0.597													7	20					0	0	0.001984	0	0	
FOXD3	27022	broad.mit.edu	37	1	63789265	63789265	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:63789265G>A	uc001dax.2	+	1	536	c.536G>A	c.(535-537)AGG>AAG	p.R179K		NM_012183	NP_036315	Q9UJU5	FOXD3_HUMAN	forkhead box D3	179	Fork-head.				axon extension involved in axon guidance|branching involved in ureteric bud morphogenesis|cartilage development|embryonic placenta development|enteric nervous system development|iridophore differentiation|kidney development|lateral line nerve glial cell development|melanocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development|trophectodermal cell differentiation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CCCTACTACAGGGAGAAGTTC	0.617													14	87					0	0	0.001855	0	0	
SGIP1	84251	broad.mit.edu	37	1	67154912	67154912	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:67154912C>A	uc001dcr.2	+	16	1614	c.1397C>A	c.(1396-1398)CCA>CAA	p.P466Q	SGIP1_uc010opd.1_Missense_Mutation_p.P66Q|SGIP1_uc001dcs.2_Missense_Mutation_p.P66Q|SGIP1_uc001dct.2_Missense_Mutation_p.P66Q|SGIP1_uc009wat.2_Missense_Mutation_p.P260Q	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	466	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						CCCCGGCCTCCATCCCGGCCA	0.532													30	199					2.65835e-16	3.09408e-16	0.007291	1	0	
DIRAS3	9077	broad.mit.edu	37	1	68512338	68512338	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:68512338T>C	uc001ded.2	-	2	938	c.643A>G	c.(643-645)ATG>GTG	p.M215V	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	215					regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						GTGTTGGGCATCTGGGATTTC	0.522													20	74					0	0	0.010504	0	0	
CCDC18	343099	broad.mit.edu	37	1	93682304	93682304	+	Splice_Site	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:93682304G>T	uc001dpq.2	+	13	2352	c.2184_splice	c.e13+1	p.M728_splice	CCDC18_uc009wdl.1_Splice_Site_p.M289_splice	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41											ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		GGAGCTTATGGTAAAACTTAT	0.308													9	43					0.00621372	0.00640316	0.006214	1	0	
AGL	178	broad.mit.edu	37	1	100345508	100345508	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:100345508A>G	uc001dsi.1	+	13	2041	c.1641A>G	c.(1639-1641)CAA>CAG	p.Q547Q	AGL_uc001dsj.1_Silent_p.Q547Q|AGL_uc001dsk.1_Silent_p.Q547Q|AGL_uc001dsl.1_Silent_p.Q547Q|AGL_uc001dsm.1_Silent_p.Q531Q|AGL_uc001dsn.1_Silent_p.Q530Q	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	547	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		GGAATTTGCAACCCAATTTAT	0.378													10	65					0	0	0.008291	0	0	
Unknown	0	broad.mit.edu	37	1	104260702	104260702	+	Missense_Mutation	SNP	C	G	G	rs147455477		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:104260702C>G	uc010our.1	+	4	449	c.327C>G	c.(325-327)TGC>TGG	p.C109W		NM_000699	NP_000690			pancreatic amylase alpha 2A precursor																		GCAATGACTGCGTCTGTGAAC	0.363													2	1					0	0	0.001168	0	0	
FNDC7	163479	broad.mit.edu	37	1	109276074	109276074	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:109276074G>A	uc001dvx.2	+	10	2060	c.2060G>A	c.(2059-2061)GGG>GAG	p.G687E	FNDC7_uc010ova.1_Missense_Mutation_p.G454E	NM_001144937	NP_001138409	Q5VTL7	FNDC7_HUMAN	fibronectin type III domain containing 7	688	Fibronectin type-III 8.					extracellular region				ovary(1)|skin(1)	2		all_lung(203;0.00439)|Lung NSC(277;0.00683)|all_epithelial(167;0.00728)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.173)|all cancers(265;0.244)		ATACCCTGTGGGGATGTATAC	0.443													14	67					0	0	0.001855	0	0	
ATXN7L2	127002	broad.mit.edu	37	1	110029157	110029157	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:110029157C>G	uc001dxr.2	+	3	238	c.223C>G	c.(223-225)CAT>GAT	p.H75D	ATXN7L2_uc001dxs.2_5'Flank	NM_153340	NP_699171	Q5T6C5	AT7L2_HUMAN	ataxin 7-like 2	75										ovary(2)	2		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0426)|Epithelial(280;0.0675)|READ - Rectum adenocarcinoma(129;0.0693)|all cancers(265;0.071)|LUSC - Lung squamous cell carcinoma(189;0.228)		CTGCCCTGCCCATGATGACTT	0.552													5	28					0	0	0.000602	0	0	
GPR61	83873	broad.mit.edu	37	1	110086455	110086455	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:110086455G>C	uc001dxy.2	+	2	1494	c.811G>C	c.(811-813)GCC>CCC	p.A271P		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	271	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		CAGCTCGGGGGCCCCCCAGAC	0.662													6	51					0	0	0.001984	0	0	
RSBN1	54665	broad.mit.edu	37	1	114309746	114309747	+	Missense_Mutation	DNP	TC	AT	AT			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:114309746_114309747TC>AT	uc001edq.2	-	6	1945_1946	c.1909_1910GA>AT	c.(1909-1911)GAT>ATT	p.D637I	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	637						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTCATGAAGATCTAACTGAAGT	0.317													3	17					0	0	0.004672	0	0	
NHLH2	4808	broad.mit.edu	37	1	116380625	116380625	+	Silent	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:116380625G>T	uc009wgz.2	-	2	874	c.369C>A	c.(367-369)ATC>ATA	p.I123I	NHLH2_uc001efy.2_Silent_p.I123I	NM_001111061	NP_001104531	Q02577	HEN2_HUMAN	nescient helix loop helix 2	123	Helix-loop-helix motif.				cell differentiation|central nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0	Lung SC(450;0.184)	all_cancers(81;1.75e-06)|all_epithelial(167;1.16e-06)|all_lung(203;9.55e-06)|Lung NSC(69;5.83e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		AGATGTAGCAGATGGCCAGGC	0.652													3	13					0.00909568	0.00933882	0.009096	1	0	
NBPF10	100132406	broad.mit.edu	37	1	145296403	145296403	+	Silent	SNP	C	T	T	rs4996269	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:145296403C>T	uc001end.3	+	3	360	c.325C>T	c.(325-327)CTA>TTA	p.L109L	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_Silent_p.L109L|NBPF10_uc001emq.1_Intron	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	109											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		GCTGACCCAGCTAAGGGAGAA	0.517													9	135					0	0	0.004990	0	0	
VPS45	11311	broad.mit.edu	37	1	150040745	150040745	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:150040745T>G	uc001etp.2	+	2	725	c.152T>G	c.(151-153)CTC>CGC	p.L51R	VPS45_uc010pbp.1_RNA|VPS45_uc010pbq.1_Missense_Mutation_p.L15R|VPS45_uc010pbs.1_Missense_Mutation_p.L15R|VPS45_uc009wlm.1_Missense_Mutation_p.L51R|VPS45_uc010pbr.1_Missense_Mutation_p.L15R	NM_007259	NP_009190	Q9NRW7	VPS45_HUMAN	vacuolar protein sorting 45A	51					blood coagulation|intracellular protein transport|vesicle docking involved in exocytosis	endosome membrane|Golgi membrane|integral to membrane of membrane fraction				central_nervous_system(1)|skin(1)	2	Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GAAGTGTACCTCTTTGAACGC	0.373													13	75					0	0	0.001368	0	0	
ANP32E	81611	broad.mit.edu	37	1	150201521	150201521	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:150201521G>A	uc001etw.2	-	4	747	c.377C>T	c.(376-378)ACA>ATA	p.T126I	ANP32E_uc010pbt.1_5'Flank|ANP32E_uc010pbu.1_Missense_Mutation_p.T78I|ANP32E_uc010pbv.1_Missense_Mutation_p.T85I|ANP32E_uc001etv.3_Missense_Mutation_p.T126I|ANP32E_uc010pbw.1_Intron	NM_030920	NP_112182	Q9BTT0	AN32E_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32	126	LRRCT.					cytoplasmic membrane-bounded vesicle|nucleus	phosphatase inhibitor activity				0	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			TTCCAGGTTTGTGATCTCACA	0.323													21	30					0	0	0.008871	0	0	
APH1A	51107	broad.mit.edu	37	1	150240152	150240152	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:150240152C>T	uc001ety.1	-	3	644	c.322G>A	c.(322-324)GGA>AGA	p.G108R	APH1A_uc010pbx.1_Intron|APH1A_uc001etz.1_Missense_Mutation_p.G108R|APH1A_uc001eua.1_Missense_Mutation_p.G108R|APH1A_uc010pby.1_Missense_Mutation_p.G51R|APH1A_uc001eub.1_5'UTR|APH1A_uc010pbz.1_5'UTR	NM_001077628	NP_001071096	Q96BI3	APH1A_HUMAN	anterior pharynx defective 1 homolog A isoform	108	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to plasma membrane	protein binding			ovary(1)|lung(1)	2	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGTGATCTTCCGTCCTCACTC	0.592													5	21					0	0	0.001168	0	0	
SEMA6C	10500	broad.mit.edu	37	1	151115071	151115071	+	Silent	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:151115071G>C	uc001ewu.2	-	3	327	c.27C>G	c.(25-27)CCC>CCG	p.P9P	SEMA6C_uc001ewv.2_Silent_p.P9P|SEMA6C_uc001eww.2_Silent_p.P9P|SEMA6C_uc010pcq.1_Silent_p.P9P|SEMA6C_uc009wml.1_Intron	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	9						integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GTAGCAGCAAGGGCATGAAGT	0.647													3	11					0	0	0.004672	0	0	
MRPL9	65005	broad.mit.edu	37	1	151732634	151732634	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:151732634T>A	uc001eyv.2	-	7	781	c.696A>T	c.(694-696)AGA>AGT	p.R232S	MRPL9_uc009wmz.2_RNA	NM_031420	NP_113608	Q9BYD2	RM09_HUMAN	mitochondrial ribosomal protein L9 precursor	232					translation	mitochondrial ribosome	structural constituent of ribosome			ovary(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			ACATAGGCACTCTCACAGTAT	0.478													9	50					0	0	0.004482	0	0	
HRNR	388697	broad.mit.edu	37	1	152192965	152192965	+	Silent	SNP	C	T	T	rs139453762		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:152192965C>T	uc001ezt.1	-	3	1216	c.1140G>A	c.(1138-1140)ACG>ACA	p.T380T		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	380	4.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGCCCTGACGTAGATCCAT	0.567													17	128					0	0	0.004990	0	0	
FLG	2312	broad.mit.edu	37	1	152284910	152284910	+	Missense_Mutation	SNP	G	C	C	rs147738817		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:152284910G>C	uc001ezu.1	-	3	2488	c.2452C>G	c.(2452-2454)CAA>GAA	p.Q818E	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	818	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGGGATCCTTGTCTTACTCCA	0.562									Ichthyosis				55	319					0	0	0.003610	0	0	
FLG2	388698	broad.mit.edu	37	1	152327308	152327308	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:152327308G>C	uc001ezw.3	-	3	3027	c.2954C>G	c.(2953-2955)TCT>TGT	p.S985C	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	985	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCAAAGCCAGAGGATTTTCC	0.498													62	432					0	0	0.003610	0	0	
SLC27A3	11000	broad.mit.edu	37	1	153749026	153749026	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:153749026G>T	uc001fcz.2	+	2	906	c.841G>T	c.(841-843)GCC>TCC	p.A281S	SLC27A3_uc009won.2_RNA	NM_024330	NP_077306	Q5K4L6	S27A3_HUMAN	solute carrier family 27 member 3	281					fatty acid metabolic process	integral to membrane|mitochondrial membrane	ligase activity|nucleotide binding			ovary(1)	1	all_lung(78;6.47e-32)|Lung NSC(65;2.52e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GGACCTGCCCGCCCTGAGAGC	0.622													18	101					1.22574e-08	1.37733e-08	0.002299	1	0	
HCN3	57657	broad.mit.edu	37	1	155252420	155252420	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:155252420C>T	uc001fjz.1	+	2	505	c.497C>T	c.(496-498)ACG>ATG	p.T166M	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_Translation_Start_Site	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	166	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GCCATCCGCACGCGCTACCTG	0.582													14	54					0	0	0.002450	0	0	
KIRREL	55243	broad.mit.edu	37	1	158059568	158059568	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:158059568T>C	uc001frn.3	+	10	1636	c.1232T>C	c.(1231-1233)GTG>GCG	p.V411A	KIRREL_uc010pib.1_Missense_Mutation_p.V311A|KIRREL_uc009wsq.2_Missense_Mutation_p.V247A|KIRREL_uc001fro.3_Missense_Mutation_p.V225A	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	411	Ig-like C2-type 5.|Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					GGTGGCAAGGTGGAGTGTTTC	0.592													8	45					0	0	0.003080	0	0	
CD1A	909	broad.mit.edu	37	1	158226016	158226016	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:158226016G>A	uc001frt.2	+	3	1081	c.548G>A	c.(547-549)TGC>TAC	p.C183Y		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	183	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	AGTGACACCTGCCCACGTTTC	0.463													14	73					0	0	0.001855	0	0	
OR10T2	128360	broad.mit.edu	37	1	158368498	158368498	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:158368498G>A	uc010pih.1	-	1	759	c.759C>T	c.(757-759)GGC>GGT	p.G253G		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					TAGAGGCACAGCCATAGTGGA	0.507													11	43					0	0	0.001368	0	0	
HSPA7	3311	broad.mit.edu	37	1	161577154	161577154	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:161577154G>A	uc010pkp.1	+	1	1306	c.1074G>A	c.(1072-1074)CGG>CGA	p.R358R		NR_024151				RecName: Full=Putative heat shock 70 kDa protein 7; AltName: Full=Heat shock 70 kDa protein B;												0						TTCTTCAACGGCAAGGAGCTG	0.577													3	20					0	0	0.004672	0	0	
FCRLA	84824	broad.mit.edu	37	1	161682971	161682971	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:161682971C>A	uc001gbe.2	+	6	1192	c.950C>A	c.(949-951)CCT>CAT	p.P317H	FCRLA_uc001gbd.2_Missense_Mutation_p.P311H|FCRLA_uc001gbf.2_Missense_Mutation_p.P222H|FCRLA_uc001gbg.2_Missense_Mutation_p.P171H|FCRLA_uc009wuo.2_Missense_Mutation_p.P177H|FCRLA_uc009wup.2_Missense_Mutation_p.P127H|FCRLA_uc009wuq.2_Missense_Mutation_p.P76H	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	294	Pro-rich.				cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			GGGCCTCTGCCTCCGCCGCCA	0.572													16	95					1.02788e-11	1.18172e-11	0.004990	1	0	
ATF6	22926	broad.mit.edu	37	1	161789511	161789511	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:161789511G>T	uc001gbr.2	+	8	1065	c.998G>T	c.(997-999)GGG>GTG	p.G333V	ATF6_uc001gbq.1_Missense_Mutation_p.G333V	NM_007348	NP_031374	P18850	ATF6A_HUMAN	activating transcription factor 6	333	Cytoplasmic (Potential).				positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response|protein folding	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|skin(1)	3	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.00953)			TATATGCTAGGGTTAGAGGCG	0.428													8	46					5.18039e-06	5.66291e-06	0.003080	1	0	
UAP1	6675	broad.mit.edu	37	1	162569119	162569119	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:162569119A>G	uc001gce.3	+	10	1813	c.1484A>G	c.(1483-1485)AAT>AGT	p.N495S		NM_003115	NP_003106	Q16222	UAP1_HUMAN	UDP-N-acetylglucosamine pyrophosphorylase 1	512					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|nucleus|plasma membrane	UDP-N-acetylglucosamine diphosphorylase activity			ovary(2)|skin(2)|kidney(1)	5	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			ATCGATGAGAATGGAGTTCAT	0.348													3	20					0	0	0.004672	0	0	
FAM78B	149297	broad.mit.edu	37	1	166039482	166039482	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:166039482T>G	uc001gdr.2	-	3	1372	c.782A>C	c.(781-783)AAG>ACG	p.K261T	FAM78B_uc010plc.1_RNA|FAM78B_uc001gdq.2_RNA	NM_001017961	NP_001017961	Q5VT40	FA78B_HUMAN	hypothetical protein LOC149297	261										central_nervous_system(1)|skin(1)	2	all_hematologic(923;0.0813)|Acute lymphoblastic leukemia(8;0.155)					CTGCTTCTACTTAGGAGGGAT	0.577													10	78					0	0	0.008291	0	0	
F5	2153	broad.mit.edu	37	1	169500218	169500218	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:169500218C>T	uc001ggg.1	-	15	5159	c.5014G>A	c.(5014-5016)GCC>ACC	p.A1672T		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1672	F5/8 type A 3.|Plastocyanin-like 5.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	AGTCCATGGGCATGTAGAGAA	0.363													7	94					0	0	0.003080	0	0	
TPR	7175	broad.mit.edu	37	1	186300651	186300651	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:186300651A>G	uc001grv.2	-	39	5964	c.5667T>C	c.(5665-5667)GAT>GAC	p.D1889D		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1889					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		AATCTTGAGAATCCTGGTTGT	0.343			T	NTRK1	papillary thyroid								7	45					0	0	0.001984	0	0	
CRB1	23418	broad.mit.edu	37	1	197404057	197404057	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:197404057A>C	uc001gtz.2	+	9	3199	c.3064A>C	c.(3064-3066)AGT>CGT	p.S1022R	CRB1_uc010poz.1_Missense_Mutation_p.S998R|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.S910R|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.S503R|CRB1_uc001gub.1_Missense_Mutation_p.S671R	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1022	Extracellular (Potential).|Laminin G-like 3.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TTATATGCTAAGTCTGACAAG	0.413													14	47					0	0	0.001855	0	0	
KIF21B	23046	broad.mit.edu	37	1	200978019	200978019	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:200978019C>G	uc001gvs.1	-	3	642	c.325G>C	c.(325-327)GAG>CAG	p.E109Q	KIF21B_uc001gvr.1_Missense_Mutation_p.E109Q|KIF21B_uc009wzl.1_Missense_Mutation_p.E109Q|KIF21B_uc010ppn.1_Missense_Mutation_p.E109Q	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	109	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						ATGCCCTGCTCCTCCTCCGAC	0.627													14	76					0	0	0.001855	0	0	
KLHDC8A	55220	broad.mit.edu	37	1	205312566	205312566	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:205312566G>T	uc001hcf.1	-	2	735	c.167C>A	c.(166-168)GCC>GAC	p.A56D	KLHDC8A_uc010prg.1_Intron|KLHDC8A_uc001hcg.1_Missense_Mutation_p.A56D	NM_018203	NP_060673	Q8IYD2	KLD8A_HUMAN	kelch domain containing 8A	56	Kelch 2.									ovary(1)	1	Breast(84;0.23)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CCACTGGTCGGCCTCCGGGGA	0.701													8	62					0.00448238	0.00465309	0.004482	1	0	
SLC26A9	115019	broad.mit.edu	37	1	205892549	205892549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:205892549C>T	uc001hdq.2	-	15	1687	c.1573G>A	c.(1573-1575)GAT>AAT	p.D525N	SLC26A9_uc001hdo.2_Missense_Mutation_p.D193N|SLC26A9_uc001hdp.2_Missense_Mutation_p.D525N	NM_052934	NP_443166	Q7LBE3	S26A9_HUMAN	solute carrier family 26, member 9 isoform a	525	STAS.					integral to membrane	chloride channel activity|secondary active sulfate transmembrane transporter activity			ovary(1)|skin(1)	2	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0458)			CCCTGGATATCCTGGGCCTGT	0.483													9	70					0	0	0.004482	0	0	
C1orf186	440712	broad.mit.edu	37	1	206241563	206241563	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:206241563C>G	uc001hdt.1	-	4	865	c.226G>C	c.(226-228)GAC>CAC	p.D76H		NM_001007544	NP_001007545	Q6ZWK4	CA186_HUMAN	hypothetical protein LOC440712	76						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(75;0.0754)			ATTGGGATGTCTCTCTCTGTC	0.542													33	64					0	0	0.003271	0	0	
C1orf116	79098	broad.mit.edu	37	1	207198323	207198323	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:207198323C>A	uc001hfd.2	-	3	451	c.192G>T	c.(190-192)GAG>GAT	p.E64D	C1orf116_uc009xcb.1_Translation_Start_Site	NM_023938	NP_076427	Q9BW04	SARG_HUMAN	specifically androgen-regulated protein isoform	64						cytoplasm|plasma membrane	receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Prostate(682;0.19)					CGCTGTCAGCCTCCGTGTCCA	0.567													15	32					2.23348e-06	2.45103e-06	0.004007	1	0	
SERTAD4	56256	broad.mit.edu	37	1	210415046	210415046	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:210415046G>A	uc001hhy.2	+	4	614	c.435G>A	c.(433-435)ATG>ATA	p.M145I	SERTAD4_uc009xcw.2_Missense_Mutation_p.M145I	NM_019605	NP_062551	Q9NUC0	SRTD4_HUMAN	SERTA domain containing 4	145	SERTA.						protein binding			ovary(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0237)|all cancers(67;0.127)		AAATTATCATGCAGAATAACT	0.443													11	104					0	0	0.008291	0	0	
RD3	343035	broad.mit.edu	37	1	211654657	211654657	+	Missense_Mutation	SNP	G	A	A	rs148242709		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:211654657G>A	uc001him.2	-	2	1265	c.101C>T	c.(100-102)ACG>ATG	p.T34M	RD3_uc001hin.2_RNA|RD3_uc009xda.2_Intron	NM_183059	NP_898882	Q7Z3Z2	RD3_HUMAN	retinal degeneration 3	34	Potential.				response to stimulus|visual perception					ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00284)|all cancers(67;0.0279)|Epithelial(68;0.0689)		CATCTGCCCCGTCAGCTCCAT	0.627													12	72					0	0	0.001368	0	0	
SLC30A1	7779	broad.mit.edu	37	1	211749121	211749121	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:211749121G>A	uc001hio.1	-	2	1278	c.1133C>T	c.(1132-1134)GCT>GTT	p.A378V		NM_021194	NP_067017	Q9Y6M5	ZNT1_HUMAN	solute carrier family 30 (zinc transporter),	378	Cytoplasmic (Potential).				cadmium ion transmembrane transport|cellular calcium ion homeostasis|cellular zinc ion homeostasis|negative regulation of calcium ion import|negative regulation of neurotransmitter secretion|negative regulation of zinc ion import	integral to membrane|T-tubule	calcium channel inhibitor activity|zinc ion transmembrane transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(81;0.00535)|GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.0604)|Epithelial(68;0.0978)		TCTGCTTCCAGCAAGTTGCCA	0.358													9	88					0	0	0.006214	0	0	
PTPN14	5784	broad.mit.edu	37	1	214588019	214588019	+	Missense_Mutation	SNP	C	T	T	rs139895368	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:214588019C>T	uc001hkk.1	-	4	666	c.395G>A	c.(394-396)CGA>CAA	p.R132Q	PTPN14_uc010pty.1_Missense_Mutation_p.R33Q	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	132	FERM.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		CAATGTACATCGTAATCGCCC	0.413													37	145					0	0	0.003755	0	0	
CENPF	1063	broad.mit.edu	37	1	214818924	214818924	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:214818924T>C	uc001hkm.2	+	13	6185	c.6011T>C	c.(6010-6012)GTG>GCG	p.V2004A		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2100	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TGCATTCAGGTGGCAGAGGCA	0.438													8	74					0	0	0.004482	0	0	
KCTD3	51133	broad.mit.edu	37	1	215793628	215793628	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:215793628A>G	uc001hks.2	+	18	2410	c.2116A>G	c.(2116-2118)ATA>GTA	p.I706V	KCTD3_uc001hkt.2_Missense_Mutation_p.I704V|KCTD3_uc010pub.1_Missense_Mutation_p.I604V|KCTD3_uc009xdn.2_Missense_Mutation_p.I430V	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	706						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		GGAATGTAATATATCTGAGAG	0.373													7	58					0	0	0.001984	0	0	
KCTD3	51133	broad.mit.edu	37	1	215793684	215793684	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:215793684T>A	uc001hks.2	+	18	2466	c.2172T>A	c.(2170-2172)AGT>AGA	p.S724R	KCTD3_uc001hkt.2_Missense_Mutation_p.S722R|KCTD3_uc010pub.1_Missense_Mutation_p.S622R|KCTD3_uc009xdn.2_Missense_Mutation_p.S448R	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	724						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		AATTGGATAGTGGATTGGAAG	0.358													12	62					0	0	0.001368	0	0	
USH2A	7399	broad.mit.edu	37	1	215901410	215901410	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:215901410T>C	uc001hku.1	-	61	12415	c.12028A>G	c.(12028-12030)ACA>GCA	p.T4010A		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4010	Fibronectin type-III 25.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTGTTAAATGTAGGATCGTCG	0.433										HNSCC(13;0.011)			24	97					0	0	0.003954	0	0	
USH2A	7399	broad.mit.edu	37	1	216246578	216246578	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:216246578C>T	uc001hku.1	-	28	6024	c.5637G>A	c.(5635-5637)GTG>GTA	p.V1879V		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1879	Fibronectin type-III 5.|Laminin G-like 2.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CACCGCTGGACACAGATGCCA	0.468										HNSCC(13;0.011)			7	25					0	0	0.001984	0	0	
SPATA17	128153	broad.mit.edu	37	1	218036114	218036114	+	Splice_Site	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:218036114A>G	uc001hlh.1	+	10	1032	c.1006_splice	c.e10-2	p.D336_splice	SPATA17_uc001hli.2_Splice_Site_p.D336_splice	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17							cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		TTTTCCTCCTAGGATTTCCAG	0.303													33	101					0	0	0.003271	0	0	
TAF1A	9015	broad.mit.edu	37	1	222736624	222736624	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:222736624G>A	uc009xdz.1	-	9	1165	c.976C>T	c.(976-978)CGT>TGT	p.R326C	TAF1A_uc009xdy.1_Missense_Mutation_p.R17C|TAF1A_uc001hni.1_Missense_Mutation_p.R212C|TAF1A_uc001hnj.2_Missense_Mutation_p.R326C|TAF1A_uc001hnk.2_Missense_Mutation_p.R212C	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	326					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		CCCAGTTTACGGTGTTCTTCT	0.313													8	27					0	0	0.003080	0	0	
DISP1	84976	broad.mit.edu	37	1	223177310	223177310	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:223177310A>G	uc001hnu.1	+	8	2718	c.2571A>G	c.(2569-2571)AAA>AAG	p.K857K		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	857					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		AGACATTCAAACAGTGGATGG	0.463													10	49					0	0	0.008291	0	0	
GJC2	57165	broad.mit.edu	37	1	228346215	228346215	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:228346215C>T	uc001hsk.2	+	2	931	c.756C>T	c.(754-756)CAC>CAT	p.H252H		NM_020435	NP_065168	Q5T442	CXG2_HUMAN	gap junction protein, gamma 2, 47kDa	252	Extracellular (Potential).			H -> Q (in Ref. 1; AAB94511).	cell death	connexon complex|integral to membrane					0		Prostate(94;0.0405)				CCTGCCCGCACGTGGTGGACT	0.622													6	59					0	0	0.001984	0	0	
HIST3H2BB	128312	broad.mit.edu	37	1	228646133	228646133	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:228646133G>A	uc001hsz.2	+	1	326	c.303G>A	c.(301-303)CTG>CTA	p.L101L	HIST3H2A_uc001hsy.2_5'Flank	NM_175055	NP_778225	Q8N257	H2B3B_HUMAN	histone cluster 3, H2bb	101					nucleosome assembly	nucleosome|nucleus	DNA binding			skin(1)	1		Prostate(94;0.183)				CCGTTCGCCTGCTGCTGCCCG	0.652													11	76					0	0	0.008291	0	0	
NUP133	55746	broad.mit.edu	37	1	229580678	229580678	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:229580678T>C	uc001htn.2	-	25	3409	c.3317A>G	c.(3316-3318)CAG>CGG	p.Q1106R		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	1106					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				TAAAAGTTTCTGTAAGATCTT	0.284													13	69					0	0	0.002450	0	0	
NUP133	55746	broad.mit.edu	37	1	229593999	229593999	+	Nonsense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:229593999G>C	uc001htn.2	-	21	2981	c.2889C>G	c.(2887-2889)TAC>TAG	p.Y963*	uc001hto.1_5'Flank	NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	963					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				TCTTTGCAAAGTAACGAGTTT	0.373													17	45					0	0	0.004990	0	0	
RYR2	6262	broad.mit.edu	37	1	237872259	237872259	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:237872259T>C	uc001hyl.1	+	69	10123	c.10003T>C	c.(10003-10005)TCT>CCT	p.S3335P	RYR2_uc010pxz.1_Missense_Mutation_p.S290P	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3335					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TACGGTGGTGTCTGAGGAAGA	0.478													5	42					0	0	0.000602	0	0	
EXO1	9156	broad.mit.edu	37	1	242015657	242015657	+	Silent	SNP	C	T	T	rs141548668		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:242015657C>T	uc001hzh.2	+	5	765	c.225C>T	c.(223-225)CTC>CTT	p.L75L	EXO1_uc001hzi.2_Silent_p.L75L|EXO1_uc001hzj.2_Silent_p.L75L|EXO1_uc009xgq.2_Silent_p.L75L	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	75	N-domain.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			AGCCTATTCTCGTATTTGATG	0.323								Direct_reversal_of_damage|Editing_and_processing_nucleases					24	149					0	0	0.002299	0	0	
SDCCAG8	10806	broad.mit.edu	37	1	243493858	243493858	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:243493858A>C	uc001hzw.2	+	10	1241	c.1085A>C	c.(1084-1086)GAC>GCC	p.D362A	SDCCAG8_uc010pyk.1_Missense_Mutation_p.D217A|SDCCAG8_uc010pyl.1_Missense_Mutation_p.D174A|SDCCAG8_uc001hzx.2_Missense_Mutation_p.D174A	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	362	Potential.|Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		ATCCAGTGTGACCAGTTGAGG	0.398													5	52					0	0	0.003080	0	0	
KIF26B	55083	broad.mit.edu	37	1	245852058	245852058	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:245852058G>A	uc001ibf.1	+	12	6213	c.5773G>A	c.(5773-5775)GTG>ATG	p.V1925M	KIF26B_uc001ibg.1_Missense_Mutation_p.V1543M|KIF26B_uc001ibh.1_Missense_Mutation_p.V1167M	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1925					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CAGCAGCTCCGTGGGCGGCAG	0.721													4	26					0	0	0.000602	0	0	
CNST	163882	broad.mit.edu	37	1	246810592	246810592	+	Silent	SNP	G	A	A	rs149614716	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:246810592G>A	uc001ibp.2	+	9	1467	c.1089G>A	c.(1087-1089)CTG>CTA	p.L363L	CNST_uc001ibo.3_Silent_p.L363L	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	363					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						TGGAGGAGCTGCTCTGCAGCG	0.597											OREG0014367	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	131					0	0	0.003163	0	0	
UPF2	26019	broad.mit.edu	37	10	12001356	12001356	+	Splice_Site	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:12001356C>T	uc001ila.2	-	11	2659	c.2185_splice	c.e11-1	p.E729_splice	UPF2_uc001ilb.2_Splice_Site_p.E729_splice|UPF2_uc001ilc.2_Splice_Site_p.E729_splice|UPF2_uc009xiz.1_Splice_Site_p.E729_splice	NM_080599	NP_542166	Q9HAU5	RENT2_HUMAN	UPF2 regulator of nonsense transcripts homolog						mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)				TCATTTGCTCCTGAAATAAAA	0.363													5	59					0	0	0.000602	0	0	
DCLRE1C	64421	broad.mit.edu	37	10	14951067	14951067	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:14951067C>T	uc001inn.2	-	14	1504	c.1419G>A	c.(1417-1419)CTG>CTA	p.L473L	DCLRE1C_uc010qbx.1_Intron|DCLRE1C_uc001ink.2_Silent_p.L126L|DCLRE1C_uc001inl.2_Silent_p.L353L|DCLRE1C_uc009xji.2_Silent_p.L358L|DCLRE1C_uc001inm.2_Silent_p.L353L|DCLRE1C_uc001ino.2_Silent_p.L358L|DCLRE1C_uc009xjh.2_RNA|DCLRE1C_uc001inp.2_Silent_p.L353L|DCLRE1C_uc001inq.2_Silent_p.L353L|DCLRE1C_uc001inr.2_Silent_p.L358L	NM_001033855	NP_001029027	Q96SD1	DCR1C_HUMAN	artemis protein isoform a	473					DNA recombination	nucleus	5'-3' exonuclease activity|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)	1						GTACAGAGCCCAGATCTCCTT	0.423								Involved_in_tolerance_or_repair_of_DNA_crosslinks|NHEJ					6	60					0	0	0.003080	0	0	
ST8SIA6	338596	broad.mit.edu	37	10	17363149	17363149	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:17363149G>A	uc001ipd.2	-	8	925	c.925C>T	c.(925-927)CTT>TTT	p.L309F	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	309	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						CTCCAGAAAAGGGCCAGATCT	0.443													49	208					0	0	0.003610	0	0	
MLLT10	8028	broad.mit.edu	37	10	21959610	21959610	+	Nonsense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:21959610C>G	uc001iqs.2	+	10	1376	c.1028C>G	c.(1027-1029)TCA>TGA	p.S343*	MLLT10_uc001iqt.2_Nonsense_Mutation_p.S343*|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Nonsense_Mutation_p.S343*|MLLT10_uc001ira.2_5'UTR|MLLT10_uc001irb.2_5'Flank|MLLT10_uc001iqz.2_Nonsense_Mutation_p.S98*	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	343	DNA-binding.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						ACAACTGTGTCAGCAGCTAGC	0.398			T	MLL|PICALM|CDK6	AL								13	50					0	0	0.003163	0	0	
MYO3A	53904	broad.mit.edu	37	10	26385597	26385597	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:26385597G>A	uc001isn.2	+	17	2122	c.1762G>A	c.(1762-1764)GGT>AGT	p.G588S	MYO3A_uc009xko.1_Missense_Mutation_p.G588S|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Missense_Mutation_p.G588S	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	588	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						CAAAGTCATAGGTTTTACAAT	0.274													10	59					0	0	0.006214	0	0	
ARMC4	55130	broad.mit.edu	37	10	28196696	28196696	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:28196696G>A	uc009xky.2	-	17	2604	c.2506C>T	c.(2506-2508)CGC>TGC	p.R836C	ARMC4_uc010qds.1_Missense_Mutation_p.R361C|ARMC4_uc010qdt.1_Missense_Mutation_p.R528C|ARMC4_uc001itz.2_Missense_Mutation_p.R836C	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	836	ARM 6.						binding			ovary(4)|skin(2)	6						CCATCTAAGCGATCAATTATC	0.403													6	35					0	0	0.001168	0	0	
PPYR1	5540	broad.mit.edu	37	10	47087134	47087134	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:47087134G>A	uc001jee.2	+	3	770	c.351G>A	c.(349-351)TCG>TCA	p.S117S	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Silent_p.S117S	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	117	Helical; Name=3; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						GCAAGATGTCGGCCTTCATCC	0.582													16	157					0	0	0.004990	0	0	
LOC642826	642826	broad.mit.edu	37	10	47207813	47207813	+	RNA	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:47207813T>C	uc001jei.2	-	12		c.1586A>G			uc009xnf.2_Missense_Mutation_p.H132R					Homo sapiens cDNA, FLJ99065.												0						TTTACTTACATGGTTTGTACA	0.294													3	12					0	0	0.009096	0	0	
FRMPD2	143162	broad.mit.edu	37	10	49447648	49447648	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:49447648C>T	uc001jgi.2	-	7	895	c.788G>A	c.(787-789)CGC>CAC	p.R263H	FRMPD2_uc001jgh.2_Missense_Mutation_p.R232H|FRMPD2_uc001jgj.2_Missense_Mutation_p.R241H	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	263					tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		TGCTGCTTACCGGTTAACAAG	0.488													5	25					0	0	0.000602	0	0	
MAPK8	5599	broad.mit.edu	37	10	49609720	49609720	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:49609720G>A	uc009xnz.2	+	2	241	c.17G>A	c.(16-18)CGT>CAT	p.R6H	MAPK8_uc001jgl.2_Missense_Mutation_p.R6H|MAPK8_uc001jgm.2_Missense_Mutation_p.R6H|MAPK8_uc001jgo.2_Missense_Mutation_p.R6H|MAPK8_uc009xoa.2_Missense_Mutation_p.R6H|MAPK8_uc001jgn.2_Missense_Mutation_p.R6H|MAPK8_uc010qgk.1_Missense_Mutation_p.R6H|MAPK8_uc001jgp.2_Missense_Mutation_p.R6H|MAPK8_uc001jgq.2_Missense_Mutation_p.R6H	NM_139047	NP_620635	P45983	MK08_HUMAN	mitogen-activated protein kinase 8 isoform JNK1	6					activation of pro-apoptotic gene products|cellular response to mechanical stimulus|induction of apoptosis by intracellular signals|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of apoptosis|negative regulation of protein binding|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of deacetylase activity|regulation of protein localization|regulation of sequence-specific DNA binding transcription factor activity|response to UV|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|histone deacetylase binding|histone deacetylase regulator activity|JUN kinase activity|protein binding			central_nervous_system(3)|lung(2)|stomach(1)|ovary(1)|kidney(1)	8		Ovarian(717;0.0221)|Lung SC(717;0.113)|all_neural(218;0.116)		Epithelial(53;3.46e-65)|Lung(62;0.125)		AGAAGCAAGCGTGACAACAAT	0.358													6	38					0	0	0.001984	0	0	
CHAT	1103	broad.mit.edu	37	10	50872965	50872965	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:50872965T>G	uc001jhz.2	+	15	2273	c.2120T>G	c.(2119-2121)TTT>TGT	p.F707C	CHAT_uc001jhv.1_Missense_Mutation_p.F589C|CHAT_uc001jhx.1_Missense_Mutation_p.F589C|CHAT_uc001jhy.1_Missense_Mutation_p.F589C|CHAT_uc001jia.2_Missense_Mutation_p.F589C|CHAT_uc010qgs.1_Intron	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	707					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	TCTAGCAAGTTTGCAAAAGCT	0.502													13	156					0	0	0.001368	0	0	
CHAT	1103	broad.mit.edu	37	10	50872972	50872972	+	Silent	SNP	A	G	G	rs145995632		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:50872972A>G	uc001jhz.2	+	15	2280	c.2127A>G	c.(2125-2127)AAA>AAG	p.K709K	CHAT_uc001jhv.1_Silent_p.K591K|CHAT_uc001jhx.1_Silent_p.K591K|CHAT_uc001jhy.1_Silent_p.K591K|CHAT_uc001jia.2_Silent_p.K591K|CHAT_uc010qgs.1_Intron	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	709					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	AGTTTGCAAAAGCTGTGGAAG	0.507													12	143					0	0	0.000978	0	0	
FAM21A	387680	broad.mit.edu	37	10	51892678	51892678	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:51892678T>A	uc001jjb.2	+	31	4081	c.3999T>A	c.(3997-3999)GAT>GAA	p.D1333E	FAM21A_uc001jja.1_Intron|FAM21A_uc010qhi.1_Missense_Mutation_p.D1312E|FAM21A_uc010qhj.1_Missense_Mutation_p.D1271E|FAM21B_uc009xoq.2_Missense_Mutation_p.D1245E	NM_001005751	NP_001005751	Q641Q2	FA21A_HUMAN	hypothetical protein LOC387680	1333					retrograde transport, endosome to Golgi	early endosome membrane|WASH complex				ovary(1)	1						TCTTTGATGATCCCCTGAATG	0.478													12	61					0	0	0.007413	0	0	
PCDH15	65217	broad.mit.edu	37	10	55566740	55566740	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:55566740T>C	uc010qhq.1	-	36	5043	c.4648A>G	c.(4648-4650)AAT>GAT	p.N1550D	PCDH15_uc010qhr.1_Missense_Mutation_p.N1545D	NM_001142771	NP_001136243	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD3-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ACAGAACCATTCTGTGCAATA	0.473										HNSCC(58;0.16)			15	62					0	0	0.002450	0	0	
ZWINT	11130	broad.mit.edu	37	10	58118615	58118615	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:58118615G>A	uc001jjx.1	-	6	611	c.574C>T	c.(574-576)CTT>TTT	p.L192F	ZWINT_uc001jjy.1_Intron|ZWINT_uc001jka.1_Missense_Mutation_p.L192F|ZWINT_uc009xoy.1_RNA	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a	192	Potential.				cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0						AGGTTTCCAAGTTTCTGAAAC	0.552													13	81					0	0	0.001855	0	0	
FAM13C	220965	broad.mit.edu	37	10	61043178	61043178	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:61043178C>A	uc001jkn.2	-	7	671	c.537G>T	c.(535-537)AAG>AAT	p.K179N	FAM13C_uc001jko.2_Missense_Mutation_p.K179N|FAM13C_uc010qid.1_Missense_Mutation_p.K96N|FAM13C_uc010qie.1_Missense_Mutation_p.K96N|FAM13C_uc010qif.1_Missense_Mutation_p.K201N|FAM13C_uc001jkp.2_Missense_Mutation_p.K96N	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	179										ovary(2)	2						GCGCCGGGTCCTTGACTCCAT	0.532													22	111					1.1804e-14	1.3701e-14	0.003954	1	0	
HKDC1	80201	broad.mit.edu	37	10	71008477	71008477	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:71008477C>T	uc001jpf.3	+	10	1696	c.1563C>T	c.(1561-1563)GAC>GAT	p.D521D	HKDC1_uc010qje.1_Silent_p.D384D	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	521					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						GGCTGCCGGACGGCACAGGTG	0.597													3	18					0	0	0.004672	0	0	
HKDC1	80201	broad.mit.edu	37	10	71010409	71010409	+	Splice_Site	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:71010409G>T	uc001jpf.3	+	12	1969	c.1836_splice	c.e12+1	p.K612_splice	HKDC1_uc010qje.1_Splice_Site_p.K475_splice	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1						glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						CATTGACAAGGTAAGATAGCC	0.562													16	103					1.3612e-06	1.49768e-06	0.003163	1	0	
TYSND1	219743	broad.mit.edu	37	10	71899686	71899686	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:71899686C>T	uc001jqr.2	-	4	1849	c.1695G>A	c.(1693-1695)AAG>AAA	p.K565K	TYSND1_uc001jqq.2_RNA|TYSND1_uc001jqs.2_3'UTR|TYSND1_uc001jqt.2_RNA	NM_173555	NP_775826	Q2T9J0	TYSD1_HUMAN	trypsin domain containing 1 isoform a	565					proteolysis	peroxisome	serine-type endopeptidase activity			large_intestine(1)	1						AGCCTCAGAGCTTGCTCCGCG	0.622													7	54					0	0	0.001984	0	0	
GRID1	2894	broad.mit.edu	37	10	87966267	87966267	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:87966267C>T	uc001kdl.1	-	3	475	c.374G>A	c.(373-375)CGC>CAC	p.R125H	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	125	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	GCATGCGGTGCGTGGCGACCC	0.632										Multiple Myeloma(13;0.14)			11	42					0	0	0.001368	0	0	
ATAD1	84896	broad.mit.edu	37	10	89536099	89536099	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:89536099C>A	uc001key.1	-	5	952	c.669G>T	c.(667-669)TTG>TTT	p.L223F	ATAD1_uc010qmr.1_Missense_Mutation_p.L165F|ATAD1_uc009xth.1_RNA|ATAD1_uc001kez.1_Missense_Mutation_p.L223F	NM_032810	NP_116199	Q8NBU5	ATAD1_HUMAN	ATPase family, AAA domain containing 1	223						peroxisome	ATP binding|nucleoside-triphosphatase activity			large_intestine(1)|ovary(1)	2		all_cancers(4;6.78e-12)|Prostate(4;3.56e-12)|all_epithelial(4;5.58e-09)|Melanoma(5;0.0273)|Breast(4;0.0424)|all_hematologic(4;0.0846)|Colorectal(252;0.207)|Glioma(4;0.217)|all_neural(4;0.224)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00131)|GBM - Glioblastoma multiforme(1;1.1e-32)|Lung(2;1.4e-05)|LUSC - Lung squamous cell carcinoma(2;2.69e-05)|Colorectal(12;7.09e-05)|COAD - Colon adenocarcinoma(12;0.000261)|STAD - Stomach adenocarcinoma(243;0.235)		GATCAGTATCCAATCCATCCC	0.398													6	96					0.00116845	0.0012265	0.001168	1	0	
IDE	3416	broad.mit.edu	37	10	94294388	94294388	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:94294388A>G	uc001kia.2	-	3	514	c.438T>C	c.(436-438)CAT>CAC	p.H146H		NM_004969	NP_004960	P14735	IDE_HUMAN	insulin-degrading enzyme isoform 1 precursor	146					beta-amyloid metabolic process|bradykinin catabolic process|interspecies interaction between organisms|sex differentiation	cell surface|extracellular space|soluble fraction	ATP binding|metalloendopeptidase activity|protein homodimerization activity|signal transducer activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3					Bacitracin(DB00626)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGTAATTGGTATGCTCTCCAC	0.378													18	68					0	0	0.004990	0	0	
PDE6C	5146	broad.mit.edu	37	10	95381725	95381725	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:95381725C>G	uc001kiu.3	+	4	898	c.760C>G	c.(760-762)CTC>GTC	p.L254V		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	254					visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				ATTTGAAGAACTCACAGATGT	0.398													7	57					0	0	0.003080	0	0	
DNMBP	23268	broad.mit.edu	37	10	101656136	101656136	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:101656136C>T	uc001kqj.2	-	10	3031	c.2939G>A	c.(2938-2940)GGT>GAT	p.G980D	DNMBP_uc010qpl.1_Intron|DNMBP_uc001kqg.2_Missense_Mutation_p.G268D|DNMBP_uc001kqh.2_Missense_Mutation_p.G612D	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	980					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		ATCTTCATCACCCTTACGGTA	0.438													16	74					0	0	0.004990	0	0	
LZTS2	84445	broad.mit.edu	37	10	102763727	102763727	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:102763727G>T	uc001ksj.2	+	3	941	c.872G>T	c.(871-873)GGG>GTG	p.G291V	LZTS2_uc010qpw.1_Missense_Mutation_p.G291V|LZTS2_uc001ksk.2_Missense_Mutation_p.G291V|LZTS2_uc001ksl.2_Missense_Mutation_p.G291V|LZTS2_uc001ksm.2_RNA	NM_032429	NP_115805	Q9BRK4	LZTS2_HUMAN	leucine zipper, putative tumor suppressor 2	291	Ser-rich.|Required for centrosomal localization (By similarity).		G -> R (in a breast cancer sample; somatic mutation).		cell division|mitosis|Wnt receptor signaling pathway	membrane|microtubule|microtubule organizing center		p.G291R(1)		ovary(2)|large_intestine(1)|breast(1)	4				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		CGTGTGGCTGGGGGGCTTTTG	0.701													9	33					2.17888e-05	2.34841e-05	0.006214	1	0	
VWA2	340706	broad.mit.edu	37	10	116048905	116048905	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:116048905G>A	uc001lbl.1	+	12	2100	c.1779G>A	c.(1777-1779)GCG>GCA	p.A593A	VWA2_uc001lbk.1_Silent_p.A593A|VWA2_uc009xyf.1_Silent_p.A289A	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	593	VWFA 3.					extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		CCCGGGCTGCGATGCTGCGGG	0.637													7	24					0	0	0.001984	0	0	
EIF3A	8661	broad.mit.edu	37	10	120810115	120810115	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:120810115C>T	uc001ldu.2	-	16	2537	c.2391G>A	c.(2389-2391)CAG>CAA	p.Q797Q	EIF3A_uc010qsu.1_Silent_p.Q763Q|EIF3A_uc009xzg.1_5'Flank	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	797	Interaction with EIF3B.|Glu-rich.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		CTTCTTTACGCTGCCTTTTCC	0.418													37	191					0	0	0.003271	0	0	
DMBT1	1755	broad.mit.edu	37	10	124396684	124396684	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:124396684C>T	uc001lgk.1	+	51	6517	c.6411C>T	c.(6409-6411)AGC>AGT	p.S2137S	DMBT1_uc001lgl.1_Silent_p.S2127S|DMBT1_uc001lgm.1_Silent_p.S1509S|DMBT1_uc009xzz.1_Silent_p.S2136S|DMBT1_uc010qtx.1_Silent_p.S857S|DMBT1_uc009yab.1_Silent_p.S840S|DMBT1_uc009yac.1_Silent_p.S431S	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	2137	ZP.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				CCAGTGTGAGCAGGAGCTATC	0.532													6	47					0	0	0.001984	0	0	
C10orf90	118611	broad.mit.edu	37	10	128192844	128192844	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:128192844G>A	uc001ljq.2	-	3	1046	c.925C>T	c.(925-927)CTA>TTA	p.L309L	C10orf90_uc001ljp.2_Silent_p.L262L|C10orf90_uc010qum.1_Silent_p.L406L|C10orf90_uc009yao.2_Silent_p.L406L|C10orf90_uc001ljs.1_Silent_p.L262L	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	309										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CTGTTCACTAGGCCATCTACT	0.532											OREG0020616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	76					0	0	0.010504	0	0	
GLRX3	10539	broad.mit.edu	37	10	131958297	131958297	+	Nonsense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:131958297T>A	uc001lkm.1	+	3	262	c.240T>A	c.(238-240)TAT>TAA	p.Y80*	GLRX3_uc001lkn.1_Nonsense_Mutation_p.Y80*|GLRX3_uc001lko.2_RNA	NM_006541	NP_006532	O76003	GLRX3_HUMAN	glutaredoxin 3	80	Thioredoxin.				cell redox homeostasis|negative regulation of cardiac muscle hypertrophy|regulation of the force of heart contraction	cell cortex	electron carrier activity|iron-sulfur cluster binding|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(35;9.59e-07)|all_epithelial(44;1.48e-06)|Lung NSC(174;0.00566)|all_lung(145;0.00949)|Colorectal(57;0.142)|all_neural(114;0.16)|Breast(234;0.173)|Glioma(114;0.222)		OV - Ovarian serous cystadenocarcinoma(35;0.00218)		CTGAAAAATATGAAATTAGCT	0.343													17	55					0	0	0.007413	0	0	
LRRC27	80313	broad.mit.edu	37	10	134188716	134188716	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:134188716A>G	uc010quw.1	+	11	1758	c.1563A>G	c.(1561-1563)GGA>GGG	p.G521G	LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Silent_p.G521G|LRRC27_uc001llj.2_Silent_p.G459G	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	521										ovary(1)	1		all_cancers(35;6.28e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;9.12e-05)|Epithelial(32;0.000116)|all cancers(32;0.000145)|BRCA - Breast invasive adenocarcinoma(275;0.218)		CAAAATATGGAGAATCAGGAA	0.532													9	33					0	0	0.004482	0	0	
PWWP2B	170394	broad.mit.edu	37	10	134219345	134219345	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:134219345G>A	uc001lll.3	+	2	1370	c.1341G>A	c.(1339-1341)TCG>TCA	p.S447S	PWWP2B_uc009ybe.2_Silent_p.S447S	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	447											0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		GTGACCTCTCGCCTGGCCACG	0.697													8	28					0	0	0.003080	0	0	
PWWP2B	170394	broad.mit.edu	37	10	134219558	134219558	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr10:134219558C>T	uc001lll.3	+	2	1583	c.1554C>T	c.(1552-1554)GAC>GAT	p.D518D	PWWP2B_uc009ybe.2_Intron	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	518	PWWP.										0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		AGAAGGAGGACGGAGAGCCGT	0.542													7	66					0	0	0.004482	0	0	
ATHL1	80162	broad.mit.edu	37	11	292553	292553	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:292553A>C	uc010qvu.1	+	6	1149	c.1034A>C	c.(1033-1035)AAG>ACG	p.K345T	ATHL1_uc001lor.3_Missense_Mutation_p.K168T|ATHL1_uc001los.1_Missense_Mutation_p.K345T|ATHL1_uc001lou.3_5'Flank|ATHL1_uc001lov.3_5'Flank	NM_025092	NP_079368	Q32M88	ATHL1_HUMAN	ATH1, acid trehalase-like 1	345					carbohydrate metabolic process		hydrolase activity, acting on glycosyl bonds			liver(1)|central_nervous_system(1)|skin(1)	3		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.38e-28)|Epithelial(43;3.25e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		CAGGGAGCCAAGTTTGCCTGG	0.652													4	22					0	0	0.009096	0	0	
TALDO1	6888	broad.mit.edu	37	11	759008	759008	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:759008G>T	uc001lqz.2	+	3	330	c.280G>T	c.(280-282)GAA>TAA	p.E94*	TALDO1_uc010qwl.1_Nonsense_Mutation_p.E94*|TALDO1_uc001lra.2_Nonsense_Mutation_p.E94*	NM_006755	NP_006746	P37837	TALDO_HUMAN	transaldolase 1	94					energy reserve metabolic process|xylulose biosynthetic process	cytosol	protein binding|sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate glyceronetransferase activity				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;4.66e-26)|Epithelial(43;2.97e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.48e-19)|BRCA - Breast invasive adenocarcinoma(625;4.41e-05)|Lung(200;0.0595)|LUSC - Lung squamous cell carcinoma(625;0.0712)		GTTTGGAGCAGAAATACTAAA	0.438													29	104					3.99451e-17	4.66855e-17	0.009535	1	0	
MUC5B	727897	broad.mit.edu	37	11	1275541	1275541	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:1275541T>C	uc009ycr.1	+	56	16574	c.16448T>C	c.(16447-16449)GTC>GCC	p.V5483A	MUC5B_uc001ltb.2_Missense_Mutation_p.V5149A	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5146	VWFD 4.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ATGGATATCGTCCTCACTGTC	0.657													9	21					0	0	0.006214	0	0	
OR51S1	119692	broad.mit.edu	37	11	4870137	4870137	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:4870137G>T	uc010qyo.1	-	1	302	c.302C>A	c.(301-303)CCT>CAT	p.P101H		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	101	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGCTGAGGCAGGGACAGTGTG	0.527													19	67					6.94344e-10	7.86489e-10	0.006122	1	0	
OR51G1	79324	broad.mit.edu	37	11	4945149	4945149	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:4945149C>T	uc010qyr.1	-	1	421	c.421G>A	c.(421-423)GCA>ACA	p.A141T		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACAATACATGCAGGTGTCAGG	0.527													8	64					0	0	0.004482	0	0	
SCUBE2	57758	broad.mit.edu	37	11	9090971	9090971	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:9090971C>T	uc001mhh.1	-	5	669	c.589G>A	c.(589-591)GCC>ACC	p.A197T	SCUBE2_uc001mhi.1_Missense_Mutation_p.A197T|SCUBE2_uc001mhj.1_Missense_Mutation_p.A197T	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	197	EGF-like 4 (Potential).					extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		CACTCACAGGCGACGCTGCCC	0.567													11	73					0	0	0.008291	0	0	
ZNF143	7702	broad.mit.edu	37	11	9546824	9546824	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:9546824C>G	uc001mhr.2	+	15	1842	c.1724C>G	c.(1723-1725)ACT>AGT	p.T575S	ZNF143_uc009yfu.2_Missense_Mutation_p.T574S|ZNF143_uc010rby.1_Missense_Mutation_p.T544S	NM_003442	NP_003433	P52747	ZN143_HUMAN	zinc finger protein 143	575					regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding|zinc ion binding				0				all cancers(16;4.12e-09)|Epithelial(150;2.29e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0212)		GCATTCCATACTGCCTCATCA	0.413													9	67					0	0	0.006214	0	0	
SBF2	81846	broad.mit.edu	37	11	9878204	9878204	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:9878204G>A	uc001mib.2	-	19	2302	c.2164C>T	c.(2164-2166)CGC>TGC	p.R722C	SBF2_uc001mif.3_Missense_Mutation_p.R478C|uc001mig.2_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	722					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		GGCCAAAGGCGTAGTTGCTCA	0.453													25	171					0	0	0.004656	0	0	
ABCC8	6833	broad.mit.edu	37	11	17434263	17434263	+	Nonsense_Mutation	SNP	G	A	A	rs72559722		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:17434263G>A	uc001mnc.2	-	21	2632	c.2506C>T	c.(2506-2508)CGA>TGA	p.R836*		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	836	ABC transporter 1.|Cytoplasmic (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	ACACTGATTCGCTGGCGTTGA	0.542													3	12					0	0	0.009096	0	0	
HPS5	11234	broad.mit.edu	37	11	18320518	18320518	+	Splice_Site	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:18320518C>A	uc001mod.1	-	10	1264	c.986_splice	c.e10-1	p.D329_splice	HPS5_uc001moe.1_Splice_Site_p.D215_splice|HPS5_uc001mof.1_Splice_Site_p.D215_splice	NM_181507	NP_852608	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5 isoform a							cytosol				ovary(1)|pancreas(1)|skin(1)	3						TCCTGAATATCTACGAAAACC	0.383									Hermansky-Pudlak_syndrome				10	64					7.48243e-07	8.2649e-07	0.006214	1	0	
SLC17A6	57084	broad.mit.edu	37	11	22363169	22363169	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:22363169A>G	uc001mqk.2	+	2	595	c.182A>G	c.(181-183)GAC>GGC	p.D61G		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	61	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						CCGCTGTGCGACTGCACGTGC	0.647													4	27					0	0	0.009096	0	0	
KIF18A	81930	broad.mit.edu	37	11	28090826	28090826	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:28090826G>C	uc001msc.2	-	11	1752	c.1570C>G	c.(1570-1572)CAA>GAA	p.Q524E		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	524					blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						TGACCGTTTTGACTTAAGAGT	0.368													10	42					0	0	0.008291	0	0	
DEPDC7	91614	broad.mit.edu	37	11	33054300	33054300	+	Silent	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:33054300G>T	uc001mub.2	+	7	1316	c.1224G>T	c.(1222-1224)CTG>CTT	p.L408L	DEPDC7_uc001muc.2_Silent_p.L399L	NM_001077242	NP_001070710	Q96QD5	DEPD7_HUMAN	novel 58.3 KDA protein isoform 1	408					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|skin(1)	2						CAGATCTTCTGGTACTCTTTT	0.279													13	88					9.05144e-12	1.04203e-11	0.001855	1	0	
C11orf41	25758	broad.mit.edu	37	11	33564426	33564426	+	Silent	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:33564426C>G	uc001mup.3	+	1	550	c.426C>G	c.(424-426)GCC>GCG	p.A142A	C11orf41_uc001mun.1_Silent_p.A142A	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	142						integral to membrane				ovary(2)	2						TAGCCTCTGCCACTGCAAATG	0.522											OREG0020868	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	51					0	0	0.001855	0	0	
OR8H3	390152	broad.mit.edu	37	11	55890547	55890547	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:55890547A>G	uc001nii.1	+	1	699	c.699A>G	c.(697-699)GGA>GGG	p.G233G		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	233	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CCACTTCAGGAAAGCAGAAAG	0.398													23	95					0	0	0.002299	0	0	
OR8K1	390157	broad.mit.edu	37	11	56113850	56113850	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:56113850T>G	uc010rjg.1	+	1	336	c.336T>G	c.(334-336)ATT>ATG	p.I112M		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					TCTTTGAGATTTTCATCATCT	0.408										HNSCC(65;0.19)			25	180					0	0	0.006320	0	0	
OR5M8	219484	broad.mit.edu	37	11	56258216	56258216	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:56258216A>G	uc001nix.1	-	1	631	c.631T>C	c.(631-633)TTC>CTC	p.F211L		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	211	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					CATATGATGAAGAGAGAAAAA	0.433													12	69					0	0	0.000978	0	0	
OR5M10	390167	broad.mit.edu	37	11	56344805	56344805	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:56344805A>C	uc001niz.1	-	1	393	c.393T>G	c.(391-393)CAT>CAG	p.H131Q		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGGAACTGTAATGTAAAGGGC	0.458													21	71					0	0	0.001882	0	0	
SERPING1	710	broad.mit.edu	37	11	57373908	57373908	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:57373908A>C	uc001nkp.1	+	6	1108	c.917A>C	c.(916-918)AAG>ACG	p.K306T	SERPING1_uc001nkq.1_Missense_Mutation_p.K306T|SERPING1_uc010rju.1_Missense_Mutation_p.K254T|SERPING1_uc010rjv.1_Missense_Mutation_p.K311T|SERPING1_uc001nkr.1_Missense_Mutation_p.K306T|SERPING1_uc009ymi.1_Missense_Mutation_p.K315T|SERPING1_uc009ymj.1_Missense_Mutation_p.K306T|SERPING1_uc001nks.1_5'UTR	NM_000062	NP_000053	P05155	IC1_HUMAN	serpin peptidase inhibitor, clade G, member 1	306				K -> R (in Ref. 1; AAA35613).	blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1						TTTGATCCCAAGAAAACCAGA	0.433									Hereditary_Angioedema				20	86					0	0	0.007413	0	0	
LPXN	9404	broad.mit.edu	37	11	58295583	58295583	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:58295583C>G	uc001nmw.2	-	8	969	c.824G>C	c.(823-825)CGC>CCC	p.R275P	LPXN_uc009ymp.2_Missense_Mutation_p.R145P|LPXN_uc010rkj.1_Missense_Mutation_p.R280P|LPXN_uc010rkk.1_Missense_Mutation_p.R255P	NM_004811	NP_004802	O60711	LPXN_HUMAN	leupaxin isoform 2	275	LIM zinc-binding 3.				cell adhesion|protein complex assembly|signal transduction	cytoplasm	zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				CAACACTGGGCGATTGCAGCC	0.473													10	72					0	0	0.006214	0	0	
RPLP0P2	113157	broad.mit.edu	37	11	61404281	61404281	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:61404281C>T	uc001nrz.1	+	5	885	c.130C>T	c.(130-132)CGC>TGC	p.R44C		NR_002775				SubName: Full=cDNA FLJ51469, highly similar to 60S acidic ribosomal protein P0;												0						GCAGCAGATCCGCATGTCCCT	0.532													5	17					0	0	0.000602	0	0	
RTN3	10313	broad.mit.edu	37	11	63523611	63523611	+	Missense_Mutation	SNP	G	A	A	rs140229299	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:63523611G>A	uc001nxq.2	+	8	3209	c.3022G>A	c.(3022-3024)GCC>ACC	p.A1008T	RTN3_uc001nxo.2_Missense_Mutation_p.A212T|RTN3_uc001nxm.2_Missense_Mutation_p.A231T|RTN3_uc001nxn.2_Missense_Mutation_p.A989T|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Missense_Mutation_p.A896T|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Silent_p.S126S	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	1008	Interaction with FADD.|Reticulon.				apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane		p.A989T(1)		ovary(1)	1						TGTTGGCATCGCCCGAGATCA	0.408													9	66					0	0	0.004482	0	0	
CDC42BPG	55561	broad.mit.edu	37	11	64597021	64597021	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:64597021C>T	uc001obs.3	-	30	3889	c.3889G>A	c.(3889-3891)GCT>ACT	p.A1297T		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	1297	CNH.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						TAGATGCCAGCAGTGGTGAAG	0.657													4	15					0	0	0.009096	0	0	
NAALADL1	10004	broad.mit.edu	37	11	64824895	64824895	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:64824895A>C	uc001ocn.2	-	4	567	c.551T>G	c.(550-552)CTT>CGT	p.L184R	NAALADL1_uc010rnw.1_5'UTR	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	184	Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						GGTGCCTTCAAGTTTGATGCC	0.607													6	44					0	0	0.003080	0	0	
SCYL1	57410	broad.mit.edu	37	11	65294436	65294436	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:65294436C>T	uc001oea.1	+	6	774	c.697C>T	c.(697-699)CCC>TCC	p.P233S	SCYL1_uc009yqk.2_Missense_Mutation_p.P233S|SCYL1_uc001oeb.1_Missense_Mutation_p.P233S|SCYL1_uc001oec.1_Missense_Mutation_p.P233S|SCYL1_uc001oed.1_Missense_Mutation_p.P90S	NM_020680	NP_065731	Q96KG9	NTKL_HUMAN	SCY1-like 1 isoform A	233	Protein kinase.				regulation of transcription, DNA-dependent|retrograde vesicle-mediated transport, Golgi to ER|transcription, DNA-dependent	cis-Golgi network|COPI vesicle coat|ER-Golgi intermediate compartment|microtubule organizing center|nucleus	ATP binding|DNA binding|protein tyrosine kinase activity			skin(1)	1						CCTACAGATCCCCAAAACGCT	0.637													3	21					0	0	0.004672	0	0	
SLC29A2	3177	broad.mit.edu	37	11	66131005	66131005	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:66131005G>A	uc001oht.2	-	12	1502	c.1273C>T	c.(1273-1275)CAC>TAC	p.H425Y	SLC29A2_uc001ohs.2_Missense_Mutation_p.H305Y|SLC29A2_uc010rpb.1_RNA|SLC29A2_uc009yrf.2_Missense_Mutation_p.H305Y|SLC29A2_uc001ohu.2_Missense_Mutation_p.H425Y|SLC29A2_uc001ohv.2_3'UTR	NM_001532	NP_001523	Q14542	S29A2_HUMAN	solute carrier family 29 (nucleoside	425					cell proliferation|nucleobase, nucleoside and nucleotide metabolic process	basolateral plasma membrane|integral to plasma membrane|nuclear membrane|nucleolus	nucleoside transmembrane transporter activity			ovary(1)	1						TCCCTCTCGTGTGGCAGCACC	0.572													4	13					0	0	0.009096	0	0	
CLCF1	23529	broad.mit.edu	37	11	67134968	67134968	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:67134968T>C	uc001okq.2	-	2	342	c.146A>G	c.(145-147)TAC>TGC	p.Y49C	LOC100130987_uc010rpo.1_Intron|CLCF1_uc010rpp.1_Missense_Mutation_p.Y39C	NM_013246	NP_037378	Q9UBD9	CLCF1_HUMAN	cardiotrophin-like cytokine factor 1 precursor	49					B cell differentiation|cytokine-mediated signaling pathway|JAK-STAT cascade|negative regulation of neuron apoptosis|positive regulation of astrocyte differentiation|positive regulation of B cell proliferation|positive regulation of immunoglobulin production|positive regulation of isotype switching to IgE isotypes|positive regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	ciliary neurotrophic factor receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity				0			BRCA - Breast invasive adenocarcinoma(15;2.39e-06)			GTGCTCCAGGTAGCGGGTGAG	0.607													12	76					0	0	0.001368	0	0	
RPS6KB2	6199	broad.mit.edu	37	11	67201739	67201739	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:67201739C>A	uc001old.2	+	12	1122	c.1040C>A	c.(1039-1041)CCC>CAC	p.P347H	RPS6KB2_uc001olf.2_Missense_Mutation_p.P147H|RPS6KB2_uc001olg.2_Missense_Mutation_p.P347H|RPS6KB2_uc009yrq.2_Missense_Mutation_p.P147H|RPS6KB2_uc001ole.2_RNA|RPS6KB2_uc001olh.2_RNA|RPS6KB2_uc009yrr.2_Missense_Mutation_p.P178H	NM_003952	NP_003943	Q9UBS0	KS6B2_HUMAN	ribosomal protein S6 kinase, 70kDa, polypeptide	347	AGC-kinase C-terminal.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of translational initiation|translation	nucleoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|stomach(1)|lung(1)|salivary_gland(1)	7			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			CCTTTCAGGCCCTGTCTGGTG	0.612													53	224					4.37618e-36	5.15743e-36	0.003610	1	0	
PITPNM1	9600	broad.mit.edu	37	11	67267784	67267784	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:67267784C>T	uc001olx.2	-	5	938	c.749G>A	c.(748-750)CGC>CAC	p.R250H	PITPNM1_uc001olw.2_5'Flank|PITPNM1_uc001oly.2_Missense_Mutation_p.R250H|PITPNM1_uc001olz.2_Missense_Mutation_p.R250H	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	250					brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity			lung(2)|central_nervous_system(1)	3						GGCCAGCATGCGAGCAGTCTC	0.692													11	92					0	0	0.008291	0	0	
C11orf24	53838	broad.mit.edu	37	11	68030283	68030283	+	Silent	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:68030283A>C	uc001onr.3	-	4	622	c.180T>G	c.(178-180)GCT>GCG	p.A60A	C11orf24_uc001ons.2_Silent_p.A60A	NM_022338	NP_071733	Q96F05	CK024_HUMAN	hypothetical protein LOC53838 precursor	60	Extracellular (Potential).					integral to membrane					0						TGACAGGAGAAGCTGCTGCCA	0.463													17	66					0	0	0.004990	0	0	
DHCR7	1717	broad.mit.edu	37	11	71146457	71146457	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:71146457G>A	uc001oqk.2	-	9	1642	c.1392C>T	c.(1390-1392)GCC>GCT	p.A464A	DHCR7_uc001oql.2_Silent_p.A464A	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	464					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)	AAGGCACTGCGGCGGTGTAGC	0.647									Smith-Lemli-Opitz_syndrome				5	75					0	0	0.000602	0	0	
OR2AT4	341152	broad.mit.edu	37	11	74799925	74799925	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:74799925C>A	uc010rro.1	-	1	834	c.834G>T	c.(832-834)ATG>ATT	p.M278I		NM_001005285	NP_001005285	A6NND4	O2AT4_HUMAN	olfactory receptor, family 2, subfamily AT,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCACATTGCCCATGATATGGA	0.512													13	116					4.36969e-10	4.96289e-10	0.001855	1	0	
TSKU	25987	broad.mit.edu	37	11	76506961	76506961	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:76506961C>G	uc001oxt.2	+	2	473	c.301C>G	c.(301-303)CCC>GCC	p.P101A		NM_015516	NP_056331	Q8WUA8	TSK_HUMAN	tsukushin precursor	101	LRR 2.					extracellular region					0	Ovarian(111;0.112)					CAGCATCTCACCCACTGCCTT	0.632													18	62					0	0	0.006122	0	0	
NARS2	79731	broad.mit.edu	37	11	78285486	78285486	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:78285486G>A	uc001ozi.2	-	1	424	c.48C>T	c.(46-48)TCC>TCT	p.S16S	NARS2_uc010rsq.1_Intron	NM_024678	NP_078954	Q96I59	SYNM_HUMAN	asparaginyl-tRNA synthetase 2, mitochondrial	16					asparaginyl-tRNA aminoacylation	mitochondrial matrix	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding			ovary(2)	2	all_cancers(14;2.63e-17)|all_epithelial(13;1.85e-19)				L-Asparagine(DB00174)	GGAAGGGGGCGGAGGAACAGA	0.677													11	48					0	0	0.008291	0	0	
PICALM	8301	broad.mit.edu	37	11	85733455	85733455	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:85733455A>G	uc001pbm.2	-	4	693	c.407T>C	c.(406-408)GTT>GCT	p.V136A	PICALM_uc001pbl.2_Missense_Mutation_p.V136A|PICALM_uc001pbn.2_Missense_Mutation_p.V136A|PICALM_uc010rtl.1_Missense_Mutation_p.V85A	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	136	ENTH.				clathrin coat assembly|endosome transport|negative regulation of receptor-mediated endocytosis|positive regulation of transcription, DNA-dependent|receptor internalization|regulation of protein localization	clathrin coat|clathrin-coated vesicle|coated pit|Golgi apparatus|nucleus|postsynaptic membrane|presynaptic membrane	1-phosphatidylinositol binding|clathrin heavy chain binding			urinary_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(157;7.42e-07)|all_hematologic(158;0.00092)				TCTGTATGAAACTGCTTTCTC	0.269			T	MLLT10|MLL	TALL|AML|								11	89					0	0	0.001368	0	0	
FAT3	120114	broad.mit.edu	37	11	92533395	92533395	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:92533395T>G	uc001pdj.3	+	9	7233	c.7216T>G	c.(7216-7218)TTA>GTA	p.L2406V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2406	Cadherin 22.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TGTGAGTGAATTAGCCCCCCG	0.433										TCGA Ovarian(4;0.039)			21	117					0	0	0.010504	0	0	
KDM4DL	390245	broad.mit.edu	37	11	94759567	94759567	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:94759567C>T	uc010ruf.1	+	1	1146	c.846C>T	c.(844-846)CAC>CAT	p.H282H		NM_001161630	NP_001155102	B2RXH2	KD4DL_HUMAN	lysine (K)-specific demethylase 4D-like	282	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GCTTCAATCACGGCTTCAACT	0.498													5	41					0	0	0.001984	0	0	
DYNC2H1	79659	broad.mit.edu	37	11	103075616	103075616	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:103075616T>C	uc001pho.2	+	52	8521	c.8377T>C	c.(8377-8379)TGT>CGT	p.C2793R	DYNC2H1_uc001phn.1_Missense_Mutation_p.C2793R|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2793	AAA 4 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CATGATAAACTGTGAGAGTAA	0.323													3	3					0	0	0.004672	0	0	
BACE1	23621	broad.mit.edu	37	11	117161685	117161685	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:117161685G>A	uc001pqz.2	-	7	1484	c.1023C>T	c.(1021-1023)TTC>TTT	p.F341F	BACE1_uc001pqw.2_Silent_p.F316F|BACE1_uc001pqx.2_Silent_p.F272F|BACE1_uc001pqy.2_Silent_p.F297F|BACE1_uc010rxg.1_Silent_p.F216F|BACE1_uc010rxh.1_Silent_p.F241F|BACE1_uc009yzo.1_Intron|uc010rxi.1_5'Flank	NM_012104	NP_036236	P56817	BACE1_HUMAN	beta-site APP-cleaving enzyme 1 isoform A	341	Extracellular (Potential).				beta-amyloid metabolic process|membrane protein ectodomain proteolysis	cell surface|cytoplasmic vesicle membrane|endoplasmic reticulum|endosome|integral to plasma membrane|trans-Golgi network	aspartic-type endopeptidase activity|beta-aspartyl-peptidase activity|protein binding			ovary(1)	1	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000563)|all cancers(92;0.0032)		AGATGACTGGGAAAATGTTCC	0.552													12	99					0	0	0.000978	0	0	
UBE4A	9354	broad.mit.edu	37	11	118253471	118253471	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:118253471T>C	uc001psw.2	+	13	2306	c.2177T>C	c.(2176-2178)TTT>TCT	p.F726S	UBE4A_uc001psv.2_Missense_Mutation_p.F733S	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	726					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		ATCAAGGTTTTTGTGGACATC	0.458													25	73					0	0	0.005443	0	0	
DPAGT1	1798	broad.mit.edu	37	11	118968584	118968584	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:118968584G>A	uc001pvi.2	-	6	1318	c.898C>T	c.(898-900)CCT>TCT	p.P300S	H2AFX_uc001pvg.2_5'Flank|H2AFX_uc001pvh.1_5'Flank|DPAGT1_uc001pvj.2_Missense_Mutation_p.P193S|DPAGT1_uc009zaq.2_Intron|DPAGT1_uc001pvk.2_Missense_Mutation_p.P128S|DPAGT1_uc010ryz.1_Missense_Mutation_p.P300S|DPAGT1_uc001pvm.1_3'UTR|DPAGT1_uc010rza.1_Missense_Mutation_p.P193S	NM_001382	NP_001373	Q9H3H5	GPT_HUMAN	UDP-N-acetylglucosamine-dolichyl-phosphate	300	Cytoplasmic (Potential).				dolichol biosynthetic process|dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|protein oligomerization	integral to endoplasmic reticulum membrane|microsome	phospho-N-acetylmuramoyl-pentapeptide-transferase activity|transferase activity, transferring glycosyl groups|UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase activity			breast(2)|ovary(1)	3	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.55e-05)		CGGTGGCGAGGGCAGGGGATG	0.498													9	82					0	0	0.006214	0	0	
RNF26	79102	broad.mit.edu	37	11	119206040	119206040	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:119206040G>A	uc001pwh.2	+	1	804	c.208G>A	c.(208-210)GAA>AAA	p.E70K		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	70	Leu-rich.						zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		GGCCTTGATCGAAGCCGTGGT	0.592													10	140					0	0	0.008291	0	0	
OR8B4	283162	broad.mit.edu	37	11	124294407	124294407	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr11:124294407G>A	uc010sak.1	-	1	361	c.361C>T	c.(361-363)CGC>TGC	p.R121C		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		GCCACATAGCGATCATAGGCC	0.453													11	57					0	0	0.000978	0	0	
KDM5A	5927	broad.mit.edu	37	12	432830	432830	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:432830G>A	uc001qif.1	-	15	2449	c.2086C>T	c.(2086-2088)CGG>TGG	p.R696W	KDM5A_uc001qie.1_Missense_Mutation_p.R696W|KDM5A_uc010sdn.1_Missense_Mutation_p.R655W|KDM5A_uc010sdo.1_Missense_Mutation_p.R315W	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	696					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						CATACAAGCCGCTCAGGATTA	0.438			T 	NUP98	AML								19	64					0	0	0.008871	0	0	
KCNA6	3742	broad.mit.edu	37	12	4919281	4919281	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:4919281C>T	uc001qng.2	+	1	940	c.74C>T	c.(73-75)GCG>GTG	p.A25V		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	25						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						CAACAGGATGCGGGAGACTTC	0.682										HNSCC(72;0.22)			6	24					0	0	0.001168	0	0	
CD27	939	broad.mit.edu	37	12	6559355	6559355	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:6559355C>T	uc001qod.2	+	3	496	c.285C>T	c.(283-285)AAC>AAT	p.N95N	LOC678655_uc001qob.2_Intron|LOC678655_uc001qoc.2_Intron|LOC678655_uc009zel.1_Intron|CD27_uc001qoe.2_5'UTR|LOC678655_uc009zem.1_Intron|LOC678655_uc001qof.2_Intron|TAPBPL_uc001qog.3_5'Flank|TAPBPL_uc001qoh.3_5'Flank|TAPBPL_uc001qoi.1_5'Flank	NM_001242	NP_001233	P26842	CD27_HUMAN	tumor necrosis factor receptor superfamily,	95	Extracellular (Potential).|TNFR-Cys 2.				anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway|immunoglobulin mediated immune response|induction of apoptosis|positive regulation of B cell differentiation|positive regulation of JNK cascade|release of cytoplasmic sequestered NF-kappaB	extracellular region|integral to plasma membrane	caspase inhibitor activity|protein binding|transmembrane receptor activity				0						TCGTTCGCAACTGCACCATCA	0.582													7	42					0	0	0.001984	0	0	
A2M	2	broad.mit.edu	37	12	9227269	9227269	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:9227269C>T	uc001qvk.1	-	29	3756	c.3643G>A	c.(3643-3645)GCT>ACT	p.A1215T	A2M_uc001qvj.1_Missense_Mutation_p.A257T|A2M_uc009zgk.1_Missense_Mutation_p.A1065T	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1215					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GTGAGATAAGCGAGGAGCACA	0.587													4	20					0	0	0.000602	0	0	
DDX12	440081	broad.mit.edu	37	12	9573184	9573184	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:9573184T>C	uc010sgs.1	-	21	2324	c.2129A>G	c.(2128-2130)TAC>TGC	p.Y710C	DDX12_uc001qvx.3_5'Flank|DDX12_uc001qvy.1_5'Flank	NM_004400	NP_004391			DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 12												0						CAGGTACTCGTAGGAGGGGAA	0.557													6	36					0	0	0.001168	0	0	
STYK1	55359	broad.mit.edu	37	12	10777340	10777340	+	Missense_Mutation	SNP	C	T	T	rs147511596		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:10777340C>T	uc001qys.2	-	8	1357	c.836G>A	c.(835-837)CGA>CAA	p.R279Q		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	279	Protein kinase.					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						GATGGCCCCTCGGGTGTAAAC	0.502										HNSCC(73;0.22)			29	138					0	0	0.009535	0	0	
LRP6	4040	broad.mit.edu	37	12	12334193	12334193	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:12334193C>T	uc001rah.3	-	6	1299	c.1157G>A	c.(1156-1158)CGT>CAT	p.R386H	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.R386H	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	386	LDL-receptor class B 6.|Extracellular (Potential).|Beta-propeller 2.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				TATAAATGAACGGCGTATGGC	0.468													8	120					0	0	0.003080	0	0	
GRIN2B	2904	broad.mit.edu	37	12	13716375	13716375	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:13716375G>A	uc001rbt.2	-	13	3976	c.3797C>T	c.(3796-3798)CCG>CTG	p.P1266L		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1266	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGGGGCAGCCGGCTGGTCCAG	0.587													17	55					0	0	0.006122	0	0	
GRIN2B	2904	broad.mit.edu	37	12	13768095	13768095	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:13768095A>C	uc001rbt.2	-	7	1786	c.1607T>G	c.(1606-1608)GTC>GGC	p.V536G		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	536	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGACACCATGACACTGATGCC	0.517													22	75					0	0	0.010504	0	0	
GRIN2B	2904	broad.mit.edu	37	12	13906806	13906806	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:13906806T>G	uc001rbt.2	-	3	634	c.455A>C	c.(454-456)CAG>CCG	p.Q152P		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	152	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GGAAGCTTGCTGTTCAATTGA	0.398													11	48					0	0	0.008291	0	0	
SLCO1B3	28234	broad.mit.edu	37	12	21220293	21220293	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:21220293C>T	uc010sil.1	+	14	1971	c.1906C>T	c.(1906-1908)CAT>TAT	p.H636Y	LST-3TM12_uc010sim.1_Missense_Mutation_p.H575Y|LST-3TM12_uc010sin.1_Missense_Mutation_p.H528Y			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					AATCGGCTTCCATTCAATGAT	0.279													3	5					0	0	0.004672	0	0	
KRAS	3845	broad.mit.edu	37	12	25398284	25398284	+	Missense_Mutation	SNP	C	T	T	rs121913529		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:25398284C>T	uc001rgp.1	-	2	216	c.35G>A	c.(34-36)GGT>GAT	p.G12D	KRAS_uc001rgq.1_Missense_Mutation_p.G12D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			GCCTACGCCACCAGCTCCAAC	0.348	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			5	19					0	0	0.001984	0	0	
PKP2	5318	broad.mit.edu	37	12	33031100	33031100	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:33031100C>T	uc001rlj.3	-	3	829	c.714G>A	c.(712-714)CCG>CCA	p.P238P	PKP2_uc001rlk.3_Silent_p.P238P|PKP2_uc010skj.1_Silent_p.P238P	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	238					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					TGAGCAGGGCCGGGTTGGCAG	0.607													10	27					0	0	0.000978	0	0	
LRRK2	120892	broad.mit.edu	37	12	40645122	40645122	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:40645122G>A	uc001rmg.3	+	9	1168	c.1047G>A	c.(1045-1047)TGG>TGA	p.W349*	LRRK2_uc001rmh.1_5'Flank	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	349					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AATTGTTTTGGCTGGAAGCCT	0.338											OREG0003829	type=REGULATORY REGION|Gene=LRRK2|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	4	33					0	0	0.009096	0	0	
NELL2	4753	broad.mit.edu	37	12	45209887	45209887	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:45209887T>C	uc001rog.2	-	3	812	c.217A>G	c.(217-219)ACA>GCA	p.T73A	NELL2_uc001rof.3_Missense_Mutation_p.T72A|NELL2_uc001roh.2_Missense_Mutation_p.T73A|NELL2_uc009zkd.2_Missense_Mutation_p.T72A|NELL2_uc010skz.1_Missense_Mutation_p.T123A|NELL2_uc010sla.1_Missense_Mutation_p.T96A|NELL2_uc001roi.1_Missense_Mutation_p.T73A|NELL2_uc010slb.1_Missense_Mutation_p.T72A|NELL2_uc001roj.2_Missense_Mutation_p.T73A	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	73	TSP N-terminal.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TGTTCAGCTGTAGCAGTGGAT	0.308													12	106					0	0	0.000978	0	0	
ANO6	196527	broad.mit.edu	37	12	45741846	45741846	+	Silent	SNP	C	T	T	rs144883809		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:45741846C>T	uc001roo.2	+	5	716	c.381C>T	c.(379-381)CAC>CAT	p.H127H	ANO6_uc010sld.1_Silent_p.H127H|ANO6_uc010sle.1_Silent_p.H127H|ANO6_uc010slf.1_Silent_p.H148H|ANO6_uc010slg.1_Silent_p.H109H	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	127	Cytoplasmic (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						TAAAAGTACACGCACCATGGG	0.378													7	79					0	0	0.001984	0	0	
ZNF641	121274	broad.mit.edu	37	12	48737166	48737166	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:48737166G>A	uc001rrn.1	-	6	1072	c.907C>T	c.(907-909)CGA>TGA	p.R303*	ZNF641_uc001rro.1_Nonsense_Mutation_p.R289*|ZNF641_uc010sls.1_Nonsense_Mutation_p.R280*	NM_152320	NP_689533	Q96N77	ZN641_HUMAN	zinc finger protein 641	303	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						TGATGTCTTCGCCCAAAGGTC	0.522													11	73					0	0	0.000978	0	0	
RHEBL1	121268	broad.mit.edu	37	12	49462855	49462855	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:49462855G>A	uc001rtc.1	-	2	294	c.87C>T	c.(85-87)GGC>GGT	p.G29G	RHEBL1_uc001rtd.1_Silent_p.G25G|RHEBL1_uc009zlc.1_RNA	NM_144593	NP_653194	Q8TAI7	REBL1_HUMAN	Ras homolog enriched in brain like 1 precursor	29					positive regulation of NF-kappaB transcription factor activity|small GTPase mediated signal transduction|TOR signaling cascade	cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding			lung(1)|breast(1)	2						CCGAGAACTCGCCTTCCACAA	0.517													12	95					0	0	0.001368	0	0	
DIP2B	57609	broad.mit.edu	37	12	51116998	51116998	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:51116998C>T	uc001rwv.2	+	27	3336	c.3180C>T	c.(3178-3180)ATC>ATT	p.I1060I	DIP2B_uc009zlt.2_Silent_p.I490I	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1060						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						TTGAGTTAATCGCCGCCTTCT	0.502													15	54					0	0	0.002450	0	0	
KRT80	144501	broad.mit.edu	37	12	52565273	52565273	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:52565273G>A	uc001rzx.2	-	9	1366	c.1268C>T	c.(1267-1269)TCC>TTC	p.S423F	KRT80_uc001rzw.2_Missense_Mutation_p.S458F|KRT80_uc001rzy.2_3'UTR	NM_182507	NP_872313	Q6KB66	K2C80_HUMAN	keratin 80 isoform a	423	Tail.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.108)		CTTCTTTCGGGAGGGGGCCTT	0.567													5	42					0	0	0.001168	0	0	
KRT6A	3853	broad.mit.edu	37	12	52885450	52885450	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:52885450T>G	uc001sam.2	-	2	820	c.611A>C	c.(610-612)AAG>ACG	p.K204T		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	204	Rod.|Linker 1.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		CCTCACAGTCTTGGTGCCCTG	0.557													9	87					0	0	0.004482	0	0	
KRT71	112802	broad.mit.edu	37	12	52946555	52946555	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:52946555G>T	uc001sao.2	-	1	377	c.307C>A	c.(307-309)CAC>AAC	p.H103N		NM_033448	NP_258259	Q3SY84	K2C71_HUMAN	keratin 71	103	Head.						structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.194)		GTAACCTGGTGGATGCCTCCA	0.632													19	86					3.32936e-07	3.69201e-07	0.006122	1	0	
KRT73	319101	broad.mit.edu	37	12	53004418	53004418	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:53004418G>A	uc001sas.2	-	7	1347	c.1312C>T	c.(1312-1314)CTG>TTG	p.L438L		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	438	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		TCGCCCTCCAGCAGCTTGCGG	0.607													10	47					0	0	0.000978	0	0	
KRT4	3851	broad.mit.edu	37	12	53202626	53202626	+	Silent	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:53202626G>T	uc001saz.2	-	5	1336	c.1065C>A	c.(1063-1065)TCC>TCA	p.S355S		NM_002272	NP_002263	B4DRS2	B4DRS2_HUMAN	keratin 4	281						keratin filament	structural molecule activity			ovary(4)|skin(2)	6						TCTGCATCTGGGACAGCTCCT	0.567													6	39					3.59834e-05	3.86844e-05	0.001168	1	0	
CSAD	51380	broad.mit.edu	37	12	53564261	53564261	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:53564261G>A	uc001sby.2	-	8	719	c.593C>T	c.(592-594)GCT>GTT	p.A198V	CSAD_uc001sbw.2_Missense_Mutation_p.A51V|CSAD_uc009zmt.2_5'UTR|CSAD_uc010snx.1_Missense_Mutation_p.A225V|CSAD_uc001sbz.2_Missense_Mutation_p.A198V|CSAD_uc009zmu.2_Missense_Mutation_p.A51V|CSAD_uc001sca.3_RNA	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	198					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	CAGAAACGCAGCTCCCTTCTG	0.557									Hereditary_Prostate_Cancer				6	35					0	0	0.001168	0	0	
HOXC13	3229	broad.mit.edu	37	12	54333266	54333266	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:54333266G>A	uc001sei.2	+	1	691	c.576G>A	c.(574-576)TCG>TCA	p.S192S	HOXC13_uc010sop.1_RNA	NM_017410	NP_059106	P31276	HXC13_HUMAN	homeobox C13	192						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						TGGACGTGTCGGTGGTGCCCG	0.677			T	NUP98	AML								9	22					0	0	0.008291	0	0	
CBX5	23468	broad.mit.edu	37	12	54651347	54651347	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:54651347C>T	uc001sfh.3	-	2	406	c.88G>A	c.(88-90)GTG>ATG	p.V30M	CBX5_uc001sfk.3_Missense_Mutation_p.V30M|CBX5_uc001sfi.3_Missense_Mutation_p.V30M|CBX5_uc001sfj.3_Missense_Mutation_p.V30M	NM_001127322	NP_001120794	P45973	CBX5_HUMAN	heterochromatin protein 1-alpha	30	Chromo 1.				blood coagulation|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|nuclear centromeric heterochromatin|nuclear envelope|nucleolus|transcriptional repressor complex	methylated histone residue binding|protein binding, bridging|repressing transcription factor binding				0						CCCTTAACCACGCGCCTGTCT	0.483													13	76					0	0	0.001855	0	0	
OR6C6	283365	broad.mit.edu	37	12	55688543	55688543	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:55688543C>T	uc010sph.1	-	1	474	c.474G>A	c.(472-474)TTG>TTA	p.L158L		NM_001005493	NP_001005493	A6NF89	OR6C6_HUMAN	olfactory receptor, family 6, subfamily C,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|skin(1)	2						GTCCCATGACCAATGGGGGAA	0.418													12	73					0	0	0.002450	0	0	
ERBB3	2065	broad.mit.edu	37	12	56495520	56495520	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:56495520G>A	uc001sjh.2	+	28	3903	c.3710G>A	c.(3709-3711)AGC>AAC	p.S1237N	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Missense_Mutation_p.S594N|ERBB3_uc010sqc.1_Missense_Mutation_p.S1178N|ERBB3_uc009zok.2_Missense_Mutation_p.S502N|ERBB3_uc001sjk.2_Missense_Mutation_p.S478N|ERBB3_uc001sjl.2_Missense_Mutation_p.S357N|PA2G4_uc001sjm.2_5'Flank|PA2G4_uc009zol.2_5'Flank|PA2G4_uc009zom.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	1237	Cytoplasmic (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			TCTCTGGGCAGCACACAGAGT	0.542													5	56					0	0	0.000602	0	0	
R3HDM2	22864	broad.mit.edu	37	12	57660560	57660560	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:57660560C>T	uc009zpm.1	-	17	2078	c.2043G>A	c.(2041-2043)CAG>CAA	p.Q681Q	R3HDM2_uc010srn.1_RNA|R3HDM2_uc001snu.2_Silent_p.Q376Q|R3HDM2_uc001snr.2_Silent_p.Q408Q|R3HDM2_uc001sns.2_Silent_p.Q681Q|R3HDM2_uc001snt.2_Silent_p.Q695Q|R3HDM2_uc009zpn.1_Intron	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	681	Gln-rich.					nucleus	nucleic acid binding			ovary(2)	2						GAGAGGGAGACTGAGGCATCT	0.542													3	26					0	0	0.004672	0	0	
INHBC	3626	broad.mit.edu	37	12	57843751	57843751	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:57843751C>G	uc001snv.1	+	2	1132	c.1005C>G	c.(1003-1005)AAC>AAG	p.N335K		NM_005538	NP_005529	P55103	INHBC_HUMAN	inhibin beta C chain preproprotein	335					growth	extracellular region	growth factor activity|hormone activity|transforming growth factor beta receptor binding				0						GGGACAGCAACATTGTCAAGA	0.567													7	48					0	0	0.001984	0	0	
CYP27B1	1594	broad.mit.edu	37	12	58158285	58158285	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:58158285C>T	uc001spz.1	-	6	1164	c.1012G>A	c.(1012-1014)GAA>AAA	p.E338K	CYP27B1_uc001sqa.1_Missense_Mutation_p.E103K|CYP27B1_uc001sqb.1_3'UTR|CYP27B1_uc001sqc.1_3'UTR	NM_000785	NP_000776	O15528	CP27B_HUMAN	cytochrome P450, family 27, subfamily B,	338					bone mineralization|calcium ion homeostasis|calcium ion transport|decidualization|G1 to G0 transition|hormone biosynthetic process|negative regulation of calcidiol 1-monooxygenase activity|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of keratinocyte differentiation|positive regulation of vitamin D 24-hydroxylase activity|positive regulation of vitamin D receptor signaling pathway|regulation of bone mineralization|response to estrogen stimulus|response to interferon-gamma|response to lipopolysaccharide|response to tumor necrosis factor|response to vitamin D|vitamin D biosynthetic process|xenobiotic metabolic process	mitochondrial outer membrane	calcidiol 1-monooxygenase activity|electron carrier activity|heme binding			central_nervous_system(3)	3	all_cancers(7;8.09e-80)|Lung NSC(6;2.26e-27)|all_lung(6;1.99e-25)|all_epithelial(6;3.62e-18)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)		GBM - Glioblastoma multiforme(5;1.97e-113)|all cancers(5;1.54e-78)|BRCA - Breast invasive adenocarcinoma(9;0.0294)		Calcidiol(DB00146)|Calcitriol(DB00136)|Ergocalciferol(DB00153)	GTCTGGACTTCGGGGTGCCGG	0.582													15	99					0	0	0.002450	0	0	
LRRIQ1	84125	broad.mit.edu	37	12	85500378	85500378	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:85500378A>T	uc001tac.2	+	15	3473	c.3362A>T	c.(3361-3363)CAA>CTA	p.Q1121L	LRRIQ1_uc001tab.1_Missense_Mutation_p.Q1121L	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1121	LRRCT.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		CCACTTCTTCAAGAAACAAAC	0.328													12	75					0	0	0.000978	0	0	
C12orf50	160419	broad.mit.edu	37	12	88420304	88420304	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:88420304G>A	uc001tam.1	-	3	262	c.94C>T	c.(94-96)CCT>TCT	p.P32S	C12orf50_uc001tan.2_Missense_Mutation_p.P86S	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	32										skin(2)|ovary(1)	3						ATATTTCGAGGTTTGCTGTGA	0.378													5	43					0	0	0.001984	0	0	
ANKS1B	56899	broad.mit.edu	37	12	100169377	100169377	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:100169377G>T	uc001tge.1	-	7	1327	c.910C>A	c.(910-912)CAA>AAA	p.Q304K	ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Missense_Mutation_p.Q270K	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	304						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TGTGTTTCTTGTGTTGCATCT	0.388													6	23					0.00198382	0.0020721	0.001984	1	0	
ACAD10	80724	broad.mit.edu	37	12	112182513	112182513	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:112182513G>A	uc001tsq.2	+	13	1981	c.1781G>A	c.(1780-1782)TGG>TAG	p.W594*	ACAD10_uc001tsp.2_Nonsense_Mutation_p.W594*|ACAD10_uc009zvx.2_Nonsense_Mutation_p.W625*|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	594							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						AACCTGGCGTGGGATTTCGCA	0.498													12	73					0	0	0.001368	0	0	
PTPN11	5781	broad.mit.edu	37	12	112926847	112926847	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:112926847C>T	uc001ttx.2	+	13	1847	c.1467C>T	c.(1465-1467)GAC>GAT	p.D489D		NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	493	Tyrosine-protein phosphatase.				axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding			haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						GCGATATTGACGTTCCCAAAA	0.443			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				21	92					0	0	0.001882	0	0	
RPH3A	22895	broad.mit.edu	37	12	113314620	113314620	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:113314620C>A	uc010syl.1	+	13	1482	c.1120C>A	c.(1120-1122)CCC>ACC	p.P374T	RPH3A_uc001ttz.2_Missense_Mutation_p.P374T|RPH3A_uc001tty.2_Missense_Mutation_p.P370T|RPH3A_uc009zwe.1_Missense_Mutation_p.P370T|RPH3A_uc010sym.1_Missense_Mutation_p.P325T|RPH3A_uc001tua.2_Missense_Mutation_p.P134T	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	374	Pro-rich.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		CCAGCCACCACCCCCAGAGGA	0.592													4	42					8.12818e-05	8.67212e-05	0.001984	1	0	
OAS3	4940	broad.mit.edu	37	12	113385824	113385824	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:113385824G>C	uc001tug.2	+	5	1036	c.949G>C	c.(949-951)GCC>CCC	p.A317P		NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	317	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						GGATTTGCTAGCCCAGGAGGC	0.572													5	13					0	0	0.001168	0	0	
FBXO21	23014	broad.mit.edu	37	12	117612011	117612011	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:117612011T>C	uc001twk.2	-	6	914	c.875A>G	c.(874-876)CAG>CGG	p.Q292R	FBXO21_uc001twj.2_Missense_Mutation_p.Q292R|FBXO21_uc009zwq.2_Missense_Mutation_p.Q292R	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	292					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		TATATTTACCTGATGCATATA	0.284													20	89					0	0	0.010504	0	0	
SUDS3	64426	broad.mit.edu	37	12	118828954	118828954	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:118828954C>T	uc001twz.2	+	6	523	c.384C>T	c.(382-384)TAC>TAT	p.Y128Y		NM_022491	NP_071936	Q9H7L9	SDS3_HUMAN	suppressor of defective silencing 3	128	Potential.				chromatin modification|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	Sin3 complex	histone deacetylase binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AACGAAATTACATTAAAGAAA	0.448													13	58					0	0	0.002450	0	0	
SLC15A4	121260	broad.mit.edu	37	12	129293469	129293469	+	Silent	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:129293469A>C	uc001uhu.2	-	5	1175	c.1122T>G	c.(1120-1122)GCT>GCG	p.A374A	SLC15A4_uc001uhv.2_RNA	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	374	Helical; (Potential).				oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		GGATGAGCACAGCATCAAACA	0.557													9	53					0	0	0.000978	0	0	
POLE	5426	broad.mit.edu	37	12	133210934	133210934	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:133210934C>A	uc001uks.1	-	43	5886	c.5842G>T	c.(5842-5844)GAT>TAT	p.D1948Y	POLE_uc001ukq.1_Missense_Mutation_p.D158Y|POLE_uc001ukr.1_Missense_Mutation_p.D752Y|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1948					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		tcctgctcatcctcTGCTCCC	0.358								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					9	50					1.12685e-05	1.22389e-05	0.004482	1	0	
POLE	5426	broad.mit.edu	37	12	133219578	133219578	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr12:133219578C>T	uc001uks.1	-	36	4600	c.4556G>A	c.(4555-4557)CGC>CAC	p.R1519H	POLE_uc001ukq.1_5'Flank|POLE_uc001ukr.1_Missense_Mutation_p.R323H|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1519					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CTGGTTGCTGCGCACCTAGAC	0.672								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					7	22					0	0	0.001984	0	0	
TUBA3C	7278	broad.mit.edu	37	13	19748247	19748247	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:19748247T>G	uc009zzj.2	-	5	1158	c.1109A>C	c.(1108-1110)AAG>ACG	p.K370T		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	370					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		CCGCTGCACCTTGGCCAGGTC	0.602													20	57					0	0	0.008871	0	0	
GPR12	2835	broad.mit.edu	37	13	27333706	27333706	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:27333706C>A	uc010aal.2	-	2	481	c.259G>T	c.(259-261)GCT>TCT	p.A87S	GPR12_uc010tdl.1_Intron	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	87	Helical; Name=2; (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		TCTGCAAGAGCCAGGCTGCCT	0.537													14	62					3.27435e-08	3.65499e-08	0.002450	1	0	
EEF1DP3	196549	broad.mit.edu	37	13	32527308	32527308	+	RNA	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:32527308G>T	uc001utu.2	+	4		c.1066G>T			EEF1DP3_uc010tdv.1_Intron|uc001utv.2_RNA					Homo sapiens similar to hypothetical protein FLJ20897, mRNA (cDNA clone IMAGE:5267252).												0						CTGGAGGCCTGTGTGCGCTTC	0.647													5	25					0.000602214	0.000634503	0.000602	1	0	
SMAD9	4093	broad.mit.edu	37	13	37446842	37446842	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:37446842T>C	uc001uvw.2	-	3	966	c.623A>G	c.(622-624)CAC>CGC	p.H208R	SMAD9_uc001uvx.2_Missense_Mutation_p.H208R|SMAD9_uc010tep.1_Missense_Mutation_p.H38R	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	208					BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		TCCTGGGGAGTGAGGGTAGCT	0.572													6	46					0	0	0.001168	0	0	
FREM2	341640	broad.mit.edu	37	13	39261866	39261866	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:39261866T>G	uc001uwv.2	+	1	694	c.385T>G	c.(385-387)TGC>GGC	p.C129G		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	129	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GCGCTTCCCGTGCGACTTTGG	0.716													5	7					0	0	0.001168	0	0	
DGKH	160851	broad.mit.edu	37	13	42793377	42793377	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:42793377G>A	uc001uyl.1	+	27	3246	c.3225G>A	c.(3223-3225)TCG>TCA	p.S1075S	DGKH_uc010tfh.1_Silent_p.S1075S|DGKH_uc001uym.1_Silent_p.S1075S|DGKH_uc010tfi.1_Silent_p.S830S|DGKH_uc010tfj.1_Silent_p.S930S|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Silent_p.S930S|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	1075					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		AGCTGGAATCGCCACATGAAG	0.408													37	152					0	0	0.003755	0	0	
AKAP11	11215	broad.mit.edu	37	13	42874175	42874175	+	Silent	SNP	G	A	A	rs139837011	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:42874175G>A	uc001uys.1	+	8	1468	c.1293G>A	c.(1291-1293)CCG>CCA	p.P431P		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	431					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		GTGATGCTCCGGATTCTCCTC	0.463													39	126					0	0	0.005524	0	0	
CDADC1	81602	broad.mit.edu	37	13	49852489	49852489	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:49852489A>C	uc001vcu.2	+	7	1130	c.1054A>C	c.(1054-1056)AGT>CGT	p.S352R	CDADC1_uc010tgk.1_Missense_Mutation_p.S154R|CDADC1_uc001vcv.2_Intron	NM_030911	NP_112173	Q9BWV3	CDAC1_HUMAN	cytidine and dCMP deaminase domain containing 1	352							hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Lung NSC(96;0.000705)|Breast(56;0.0011)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;1.06e-08)|COAD - Colon adenocarcinoma(199;0.216)		CTCGTAGAGAAGTTGTGATGG	0.388													48	216					0	0	0.003610	0	0	
PHF11	51131	broad.mit.edu	37	13	50096243	50096243	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:50096243G>T	uc001vdb.2	+	6	907	c.570G>T	c.(568-570)CAG>CAT	p.Q190H	PHF11_uc001vdc.2_Missense_Mutation_p.Q151H|PHF11_uc001vdd.2_RNA	NM_001040443	NP_001035533	Q9UIL8	PHF11_HUMAN	PHD finger protein 11 isoform a	190					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding				0		Lung NSC(96;2.1e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.38e-09)		ATCATGTACAGGTAATTTGAC	0.333													10	52					0.00136819	0.0014344	0.001368	1	0	
INTS6	26512	broad.mit.edu	37	13	52004473	52004473	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:52004473G>C	uc001vfk.2	-	4	1000	c.386C>G	c.(385-387)ACT>AGT	p.T129S	INTS6_uc001vfj.2_Missense_Mutation_p.T116S|INTS6_uc001vfl.2_5'UTR	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	129	VWFA.				snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		GCTCCCATCAGTAATTGTGAT	0.363													27	170					0	0	0.006320	0	0	
PCDH9	5101	broad.mit.edu	37	13	67800090	67800090	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:67800090A>G	uc001vik.2	-	2	3175	c.2483T>C	c.(2482-2484)GTT>GCT	p.V828A	PCDH9_uc001vil.2_Missense_Mutation_p.V828A|PCDH9_uc010thl.1_Missense_Mutation_p.V828A|PCDH9_uc001vin.3_Missense_Mutation_p.V828A	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	828	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GAAGATCACAACAATGACCAC	0.517													27	118					0	0	0.003954	0	0	
LMO7	4008	broad.mit.edu	37	13	76416988	76416988	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:76416988C>A	uc001vjv.2	+	22	4094	c.3334C>A	c.(3334-3336)CCT>ACT	p.P1112T	LMO7_uc010thv.1_Missense_Mutation_p.P1063T|LMO7_uc001vjt.1_Missense_Mutation_p.P1011T|LMO7_uc010thw.1_Missense_Mutation_p.P989T|LMO7_uc001vjw.1_Missense_Mutation_p.P1018T	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	1397						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		ATCTTTTAGGCCTGTTGATTC	0.333													6	76					8.12818e-05	8.67212e-05	0.001984	1	0	
SCEL	8796	broad.mit.edu	37	13	78133954	78133954	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:78133954T>C	uc001vki.2	+	4	347	c.177T>C	c.(175-177)GGT>GGC	p.G59G	SCEL_uc001vkj.2_Silent_p.G59G|SCEL_uc010thx.1_Silent_p.G59G	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	59					embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		AAAATTACGGTAGGGTGGTGC	0.423													17	86					0	0	0.007413	0	0	
RNF219	79596	broad.mit.edu	37	13	79190731	79190731	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:79190731G>T	uc001vkw.1	-	6	1224	c.1165C>A	c.(1165-1167)CCT>ACT	p.P389T	uc001vku.1_RNA|RNF219_uc010afb.1_Missense_Mutation_p.P199T|RNF219_uc010afc.2_Intron	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	389							zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		GGAGTACAAGGAGCTGGAAGA	0.428													15	115					1.3612e-06	1.49768e-06	0.003163	1	0	
ABCC4	10257	broad.mit.edu	37	13	95839089	95839089	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:95839089C>T	uc001vmd.3	-	11	1530	c.1411G>A	c.(1411-1413)GTG>ATG	p.V471M	ABCC4_uc010afk.2_Missense_Mutation_p.V471M|ABCC4_uc001vme.2_Missense_Mutation_p.V471M|ABCC4_uc010tih.1_Missense_Mutation_p.V396M|ABCC4_uc001vmf.2_Missense_Mutation_p.V428M|ABCC4_uc010afl.1_Missense_Mutation_p.V428M|ABCC4_uc010afm.1_Missense_Mutation_p.V484M	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	471	ABC transporter 1.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	CTTCCATGCACGCTGACCAGC	0.468													5	22					0	0	0.000602	0	0	
MYO16	23026	broad.mit.edu	37	13	109507879	109507879	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:109507879G>A	uc001vqt.1	+	11	1397	c.1271G>A	c.(1270-1272)CGC>CAC	p.R424H	MYO16_uc010agk.1_Missense_Mutation_p.R446H|MYO16_uc001vqu.1_Missense_Mutation_p.R224H	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	424	Myosin head-like 1.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			ATTCAGAAGCGCTTTGGGAAC	0.478													5	33					0	0	0.000602	0	0	
SOX1	6656	broad.mit.edu	37	13	112722172	112722172	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr13:112722172G>A	uc001vsb.1	+	1	260	c.200G>A	c.(199-201)CGC>CAC	p.R67H		NM_005986	NP_005977	O00570	SOX1_HUMAN	SRY (sex determining region Y)-box 1	67	HMG box.				chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)		GGGCAGCGGCGCAAGATGGCC	0.552													5	26					0	0	0.000602	0	0	
RNASE9	390443	broad.mit.edu	37	14	21025068	21025068	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:21025068G>A	uc010aho.2	-	4	320	c.161C>T	c.(160-162)ACA>ATA	p.T54I	RNASE9_uc001vxq.3_Missense_Mutation_p.T59I|RNASE9_uc010ahp.2_Missense_Mutation_p.T59I|RNASE9_uc010ahq.2_Missense_Mutation_p.T59I|RNASE9_uc010ahr.2_Missense_Mutation_p.T59I|RNASE9_uc010ahs.2_Missense_Mutation_p.T54I|RNASE9_uc010aht.2_Missense_Mutation_p.T54I|RNASE9_uc010ahu.2_Missense_Mutation_p.T54I	NM_001110357	NP_001103827	P60153	RNAS9_HUMAN	ribonuclease, RNase A family, 9 (non-active)	54						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(2)	2	all_cancers(95;0.00238)		Epithelial(56;3.32e-06)|all cancers(55;2.46e-05)	GBM - Glioblastoma multiforme(265;0.0141)		GGCGGGCCCTGTACTAAAAAA	0.388													21	86					0	0	0.010504	0	0	
RNASE12	493901	broad.mit.edu	37	14	21058544	21058544	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:21058544G>A	uc001vxt.2	-	1	439	c.339C>T	c.(337-339)GGC>GGT	p.G113G	RNASE11_uc010ahv.2_5'Flank|RNASE11_uc010ahx.2_5'Flank|RNASE11_uc010ahw.2_5'Flank|RNASE11_uc001vxs.2_5'Flank|uc001vxu.1_5'Flank	NM_001024822	NP_001019993	Q5GAN4	RNS12_HUMAN	ribonuclease, RNase A family, 12 (non-active)	113						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(95;0.00238)		Epithelial(56;1.85e-06)|all cancers(55;1.46e-05)	GBM - Glioblastoma multiforme(265;0.013)		GGTATCTTGTGCCTTCAATGA	0.463													16	81					0	0	0.003163	0	0	
LRRC16B	90668	broad.mit.edu	37	14	24528103	24528103	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:24528103C>T	uc001wlj.2	+	19	1636	c.1479C>T	c.(1477-1479)TTC>TTT	p.F493F		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	493	LRR 9.									ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		CACCAGGGTTCGACTCGGACC	0.597											OREG0022615	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	29					0	0	0.001168	0	0	
LRRC16B	90668	broad.mit.edu	37	14	24530829	24530829	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:24530829A>G	uc001wlj.2	+	27	2585	c.2428A>G	c.(2428-2430)ATC>GTC	p.I810V	LRRC16B_uc001wlk.2_5'Flank	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	810										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		CCGGAACTTCATCCGAGGGGC	0.602													5	38					0	0	0.001168	0	0	
HEATR5A	25938	broad.mit.edu	37	14	31856489	31856489	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:31856489C>T	uc001wrf.3	-	2	224	c.147G>A	c.(145-147)CCG>CCA	p.P49P	HEATR5A_uc010ami.2_5'UTR|HEATR5A_uc001wrg.1_5'UTR|HEATR5A_uc010tpk.1_Silent_p.P342P	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	336							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		TAGGGTGTGACGGTGACGCAA	0.433													16	62					0	0	0.003163	0	0	
ARHGAP5	394	broad.mit.edu	37	14	32563365	32563365	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:32563365G>A	uc001wrl.2	+	2	3729	c.3490G>A	c.(3490-3492)GCC>ACC	p.A1164T	ARHGAP5_uc001wrm.2_Missense_Mutation_p.A1164T|ARHGAP5_uc001wrn.2_Missense_Mutation_p.A1164T|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	1164					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		GTTTAGTAAAGCCAAGTCATA	0.368													15	76					0	0	0.003163	0	0	
INSM2	84684	broad.mit.edu	37	14	36005050	36005050	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:36005050C>T	uc001wth.1	+	1	1803	c.1592C>T	c.(1591-1593)CCG>CTG	p.P531L		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	531	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		AAGCACTGCCCGTCCACTTTT	0.627													13	47					0	0	0.002450	0	0	
SEC23A	10484	broad.mit.edu	37	14	39509940	39509940	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:39509940C>T	uc001wup.1	-	18	2361	c.2138G>A	c.(2137-2139)AGC>AAC	p.S713N	SEC23A_uc010tqa.1_Missense_Mutation_p.S599N|SEC23A_uc010tqb.1_Missense_Mutation_p.S684N	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	713					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		ACTTACCTGGCTGCCTCCATG	0.418													19	93					0	0	0.008871	0	0	
SEC23A	10484	broad.mit.edu	37	14	39517897	39517897	+	Missense_Mutation	SNP	T	G	G	rs148087647		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:39517897T>G	uc001wup.1	-	15	1919	c.1696A>C	c.(1696-1698)AGT>CGT	p.S566R	SEC23A_uc010tqa.1_Missense_Mutation_p.S428R|SEC23A_uc010tqb.1_Missense_Mutation_p.S537R	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	566					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		CTGAAGGAACTTGGGTCATCT	0.259													6	33					0	0	0.001168	0	0	
FSCB	84075	broad.mit.edu	37	14	44974445	44974445	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:44974445T>G	uc001wvn.2	-	1	2055	c.1746A>C	c.(1744-1746)GAA>GAC	p.E582D		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	582	Ala-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		CAGTGGTCTCTTCACCTGATG	0.532													7	28					0	0	0.001984	0	0	
FAM179B	23116	broad.mit.edu	37	14	45478227	45478227	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:45478227A>G	uc001wvv.2	+	6	3225	c.3016A>G	c.(3016-3018)ACG>GCG	p.T1006A	FAM179B_uc001wvw.2_Missense_Mutation_p.T1006A|FAM179B_uc010anc.2_Intron	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	1006	Ser-rich.						binding			skin(2)|upper_aerodigestive_tract(1)	3						GCTCGACTTGACGATGGACTC	0.438													17	60					0	0	0.006122	0	0	
FANCM	57697	broad.mit.edu	37	14	45628389	45628389	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:45628389T>G	uc001wwd.3	+	9	1586	c.1487T>G	c.(1486-1488)CTT>CGT	p.L496R	FANCM_uc001wwc.2_Missense_Mutation_p.L496R|FANCM_uc010anf.2_Missense_Mutation_p.L470R|FANCM_uc001wwe.3_Missense_Mutation_p.L101R	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	496	Helicase C-terminal.				DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						GCAGAAATGCTTTCACAGCAT	0.398								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				9	26					0	0	0.006214	0	0	
SPTB	6710	broad.mit.edu	37	14	65261234	65261234	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:65261234G>T	uc001xht.2	-	12	1800	c.1746C>A	c.(1744-1746)GAC>GAA	p.D582E	SPTB_uc001xhr.2_Missense_Mutation_p.D582E|SPTB_uc001xhs.2_Missense_Mutation_p.D582E|SPTB_uc001xhu.2_Missense_Mutation_p.D582E	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	582	Spectrin 3.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		CCTTCACTTTGTCCCCTTGGA	0.542													25	132					3.6726e-16	4.26871e-16	0.003954	1	0	
GALNTL1	57452	broad.mit.edu	37	14	69791495	69791495	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:69791495G>A	uc010aqu.1	+	3	515	c.422G>A	c.(421-423)CGC>CAC	p.R141H	GALNTL1_uc001xla.1_Missense_Mutation_p.R141H|GALNTL1_uc001xlb.1_Missense_Mutation_p.R141H	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	141	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		ACCCTGCTGCGCACAGTGAAG	0.602													6	36					0	0	0.001984	0	0	
PAPLN	89932	broad.mit.edu	37	14	73730934	73730934	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:73730934C>T	uc010ttx.1	+	20	3040	c.2877C>T	c.(2875-2877)TTC>TTT	p.F959F	PAPLN_uc001xnw.3_Silent_p.F932F|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Silent_p.F943F|PAPLN_uc010arm.2_Silent_p.F158F|PAPLN_uc010arn.2_Silent_p.F159F	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	959	Ig-like C2-type 1.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GGCTGCAGTTCGACGGATCCC	0.652													14	63					0	0	0.001855	0	0	
TRIP11	9321	broad.mit.edu	37	14	92472015	92472015	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:92472015G>T	uc001xzy.2	-	11	3093	c.2305C>A	c.(2305-2307)CAA>AAA	p.Q769K	TRIP11_uc010auf.1_Missense_Mutation_p.Q505K	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	769	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TCTTTCTTTTGATTGAGTTTA	0.333			T	PDGFRB	AML								31	143					1.75199e-13	2.03076e-13	0.007291	1	0	
TRIP11	9321	broad.mit.edu	37	14	92472025	92472025	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:92472025A>G	uc001xzy.2	-	11	3083	c.2295T>C	c.(2293-2295)ATT>ATC	p.I765I	TRIP11_uc010auf.1_Silent_p.I501I	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	765	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		GATTGAGTTTAATTAAATGCT	0.338			T	PDGFRB	AML								35	156					0	0	0.002836	0	0	
GOLGA5	9950	broad.mit.edu	37	14	93264325	93264325	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:93264325C>T	uc001yaz.1	+	2	725	c.543C>T	c.(541-543)CAC>CAT	p.H181H		NM_005113	NP_005104	Q8TBA6	GOGA5_HUMAN	Golgi autoantigen, golgin subfamily a, 5	181	Cytoplasmic (Potential).				Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		GCCAAACCCACGGTAGTTAAT	0.398			T	RET	papillary thyroid								16	110					0	0	0.004990	0	0	
ITPK1	3705	broad.mit.edu	37	14	93483104	93483104	+	Missense_Mutation	SNP	C	A	A	rs143953605	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:93483104C>A	uc001ybg.2	-	4	452	c.163G>T	c.(163-165)GTC>TTC	p.V55F	ITPK1_uc001ybe.2_Missense_Mutation_p.V55F|ITPK1_uc001ybf.2_5'UTR|ITPK1_uc001ybh.2_Missense_Mutation_p.V55F	NM_014216	NP_055031	Q13572	ITPK1_HUMAN	inositol 1,3,4-triphosphate 5/6 kinase isoform	55					blood coagulation|inositol trisphosphate metabolic process|signal transduction	cytosol	ATP binding|hydrolase activity|inositol tetrakisphosphate 1-kinase activity|inositol-1,3,4-trisphosphate 5/6-kinase activity|isomerase activity|ligase activity|magnesium ion binding				0		all_cancers(154;0.077)|all_epithelial(191;0.247)		Epithelial(152;0.124)|all cancers(159;0.169)		TGGATGATGACGTCCAGGGGG	0.582													10	66					2.17888e-05	2.34841e-05	0.006214	1	0	
BAG5	9529	broad.mit.edu	37	14	104026975	104026975	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:104026975G>C	uc001yni.1	-	2	761	c.527C>G	c.(526-528)TCC>TGC	p.S176C	KLC1_uc010tyd.1_5'Flank|BAG5_uc001ynh.1_Missense_Mutation_p.S217C|BAG5_uc001ynj.1_Missense_Mutation_p.S176C|C14orf153_uc001ynl.3_5'Flank|C14orf153_uc010tyc.1_5'Flank	NM_004873	NP_004864	Q9UL15	BAG5_HUMAN	BCL2-associated athanogene 5 isoform b	176					apoptosis|negative regulation of protein refolding|negative regulation of ubiquitin-protein ligase activity|neuron death|protein folding|regulation of inclusion body assembly	inclusion body|perinuclear region of cytoplasm	chaperone binding|ubiquitin protein ligase binding			ovary(2)	2		Melanoma(154;0.155)	Epithelial(46;0.144)			TGCATCCTCGGAAAGCGGCAG	0.493													18	81					0	0	0.006122	0	0	
ZFYVE21	79038	broad.mit.edu	37	14	104194223	104194223	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:104194223C>T	uc001yoc.2	+	3	364	c.330C>T	c.(328-330)TAC>TAT	p.Y110Y	ZFYVE21_uc001yod.2_Silent_p.Y110Y	NM_024071	NP_076976	Q9BQ24	ZFY21_HUMAN	zinc finger, FYVE domain containing 21	110						cytoplasmic membrane-bounded vesicle|focal adhesion	metal ion binding				0		Melanoma(154;0.226)		Epithelial(152;0.245)		CGGAGTTCTACGACAAGCAGC	0.672													9	20					0	0	0.004482	0	0	
PPP1R13B	23368	broad.mit.edu	37	14	104205315	104205315	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:104205315G>A	uc001yof.1	-	13	2921	c.2638C>T	c.(2638-2640)CAC>TAC	p.H880Y	PPP1R13B_uc010awv.1_RNA	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	880					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				CTCAGCCCGTGCCCCGTCCGC	0.552													12	107					0	0	0.000978	0	0	
ADAM6	8755	broad.mit.edu	37	14	106725392	106725392	+	RNA	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr14:106725392T>C	uc010tyt.1	-	588		c.18155A>G								Parts of antibodies, mostly variable regions.												0						CGGACCCAGCTCATGGCATAG	0.602													44	370					0	0	0.002522	0	0	
MAGEL2	54551	broad.mit.edu	37	15	23890249	23890249	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:23890249G>A	uc001ywj.3	-	1	927	c.832C>T	c.(832-834)CGC>TGC	p.R278C		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		TTGCCGGAGCGGCGTGGCGGC	0.652													14	43					0	0	0.002450	0	0	
PAR4	347745	broad.mit.edu	37	15	25451275	25451275	+	RNA	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:25451275C>T	uc001yzk.1	+	10		c.1493C>T			PAR4_uc010ayo.1_Intron|SNORD115-20_uc001yzq.1_5'Flank					Homo sapiens clone Rt-13I SNURF-SNRPN mRNA, downstream untranslated exons, alternatively spliced.												0						GGCCAGTGTGCGTCAGCCAGG	0.632													10	71					0	0	0.006214	0	0	
UBE3A	7337	broad.mit.edu	37	15	25616247	25616247	+	Silent	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:25616247T>A	uc001zaq.2	-	4	1083	c.1083A>T	c.(1081-1083)CTA>CTT	p.L361L	uc001zae.2_Intron|UBE3A_uc001zar.2_Silent_p.L338L|UBE3A_uc001zas.2_Silent_p.L358L|UBE3A_uc001zat.2_Silent_p.L338L	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	361					brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		CATCATTCACTAGATTTCGAC	0.378													26	102					0	0	0.003330	0	0	
ATP10A	57194	broad.mit.edu	37	15	25953353	25953353	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:25953353G>A	uc010ayu.2	-	11	2545	c.2439C>T	c.(2437-2439)ATC>ATT	p.I813I		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	813	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CTCTCTTGGCGATGCACAAGG	0.582													13	47					0	0	0.002450	0	0	
MAPKBP1	23005	broad.mit.edu	37	15	42105153	42105153	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:42105153C>T	uc001zok.3	+	8	959	c.673C>T	c.(673-675)CTG>TTG	p.L225L	MAPKBP1_uc001zoj.3_Silent_p.L225L|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Silent_p.L225L|MAPKBP1_uc010udb.1_Silent_p.L113L|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_5'UTR	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	225										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		CCGCTCAGGGCTGCTGGGAGA	0.607													5	48					0	0	0.000602	0	0	
PLA2G4F	255189	broad.mit.edu	37	15	42434768	42434768	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:42434768A>C	uc001zoz.2	-	19	2350	c.2287T>G	c.(2287-2289)TTC>GTC	p.F763V	PLA2G4F_uc010bcq.2_Missense_Mutation_p.F60V|PLA2G4F_uc001zoy.2_Missense_Mutation_p.F395V|PLA2G4F_uc010bcr.2_Missense_Mutation_p.F514V|PLA2G4F_uc001zpa.2_Missense_Mutation_p.F514V|PLA2G4F_uc010bcs.2_Missense_Mutation_p.F550V	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	763	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		ACCAGGGGGAAGTGCAGCACA	0.632													8	45					0	0	0.006214	0	0	
VPS13C	54832	broad.mit.edu	37	15	62214654	62214654	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:62214654G>A	uc002agz.2	-	54	6991	c.6917C>T	c.(6916-6918)TCA>TTA	p.S2306L	VPS13C_uc002aha.2_Missense_Mutation_p.S2263L|VPS13C_uc002ahb.1_Missense_Mutation_p.S2306L|VPS13C_uc002ahc.1_Missense_Mutation_p.S2263L	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2306					protein localization					ovary(2)	2						AATATTTCCTGAAAACTTAGA	0.393													14	95					0	0	0.003163	0	0	
CILP	8483	broad.mit.edu	37	15	65495770	65495770	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:65495770G>A	uc002aon.2	-	7	1139	c.958C>T	c.(958-960)CGG>TGG	p.R320W		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	320	Ig-like C2-type.				negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						CCAGCTCTCCGTGCTTTTGTC	0.493													11	52					0	0	0.001368	0	0	
ZWILCH	55055	broad.mit.edu	37	15	66829594	66829594	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:66829594T>C	uc002aqb.2	+	16	1813	c.1567T>C	c.(1567-1569)TAT>CAT	p.Y523H	ZWILCH_uc010bhu.1_Missense_Mutation_p.Y409H|ZWILCH_uc002aqa.2_Missense_Mutation_p.Y409H|ZWILCH_uc010bhv.2_Missense_Mutation_p.Y409H	NM_017975	NP_060445	Q9H900	ZWILC_HUMAN	Zwilch	523					cell division|mitotic cell cycle checkpoint|mitotic prometaphase	condensed chromosome kinetochore|cytosol	protein binding			ovary(1)	1						AAAGAACTTATATCAAAGGTA	0.204													7	49					0	0	0.001984	0	0	
PARP6	56965	broad.mit.edu	37	15	72552998	72552998	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:72552998T>C	uc002auc.2	-	9	1036	c.577A>G	c.(577-579)ATG>GTG	p.M193V	PARP6_uc002aua.2_Missense_Mutation_p.M58V|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA|PARP6_uc002auf.1_Missense_Mutation_p.M193V	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	193							NAD+ ADP-ribosyltransferase activity				0						CCTTTCAGCATGGAGTCCTGT	0.507													60	348					0	0	0.003610	0	0	
SEMA7A	8482	broad.mit.edu	37	15	74703669	74703669	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:74703669C>T	uc002axv.2	-	13	1646	c.1606G>A	c.(1606-1608)GAG>AAG	p.E536K	SEMA7A_uc010ulk.1_Missense_Mutation_p.E371K|SEMA7A_uc010ull.1_Missense_Mutation_p.E522K	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	536					axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						TTGTGTGGCTCGGCTGGATTA	0.582													6	25					0	0	0.001984	0	0	
SNX33	257364	broad.mit.edu	37	15	75942116	75942116	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:75942116G>A	uc002bau.2	+	1	769	c.673G>A	c.(673-675)GCC>ACC	p.A225T	IMP3_uc002bat.2_5'Flank|SNX33_uc002bav.2_5'UTR	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	225					cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1						CCAGTGGAAGGCCAATCCCCA	0.547													20	88					0	0	0.008871	0	0	
FAH	2184	broad.mit.edu	37	15	80450431	80450431	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:80450431C>T	uc002bfj.2	+	3	193	c.111C>T	c.(109-111)GGC>GGT	p.G37G	FAH_uc002bfk.1_Silent_p.G37G|FAH_uc002bfm.1_Silent_p.G37G|FAH_uc002bfn.1_5'UTR|FAH_uc010unl.1_Silent_p.G37G|FAH_uc002bfl.1_Silent_p.G37G	NM_000137	NP_000128	P16930	FAAA_HUMAN	fumarylacetoacetase	37					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	fumarylacetoacetase activity|metal ion binding				0						TGGCCATTGGCGACCAGATCC	0.527									Tyrosinemia_type_1				15	91					0	0	0.002450	0	0	
KIAA1199	57214	broad.mit.edu	37	15	81201537	81201537	+	Missense_Mutation	SNP	G	A	A	rs147046826		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:81201537G>A	uc002bfw.1	+	13	1947	c.1687G>A	c.(1687-1689)GGT>AGT	p.G563S	KIAA1199_uc010unn.1_Missense_Mutation_p.G563S	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	563				HFHLAGD -> TRPPTRP (in Ref. 5; CAB94391).						upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CCACCTGGCCGGTGATGTAGA	0.547													11	40					0	0	0.008291	0	0	
TMC3	342125	broad.mit.edu	37	15	81650758	81650758	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:81650758G>A	uc002bgo.1	-	6	585	c.585C>T	c.(583-585)ACC>ACT	p.T195T	TMC3_uc010blr.1_RNA|TMC3_uc002bgp.2_Silent_p.T195T	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	195	Helical; (Potential).					integral to membrane				ovary(1)|liver(1)	2						GAGACCAGACGGTGTCCAGGT	0.567													6	43					0	0	0.001168	0	0	
BNC1	646	broad.mit.edu	37	15	83932879	83932879	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:83932879T>G	uc002bjt.1	-	4	1212	c.1124A>C	c.(1123-1125)CAC>CCC	p.H375P	BNC1_uc010uos.1_Missense_Mutation_p.H363P	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	375	C2H2-type 1.				epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						GGCATTGTAGTGGATTTTGAG	0.502													18	96					0	0	0.008871	0	0	
NTRK3	4916	broad.mit.edu	37	15	88679770	88679770	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr15:88679770G>A	uc002bme.1	-	7	855	c.693C>T	c.(691-693)TGC>TGT	p.C231C	NTRK3_uc002bmh.2_Silent_p.C231C|NTRK3_uc002bmf.1_Silent_p.C231C|NTRK3_uc010upl.1_Silent_p.C133C|NTRK3_uc010bnh.1_Silent_p.C231C|NTRK3_uc002bmg.2_Silent_p.C231C	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	231	Ig-like C2-type 1.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			CAGAGCCATTGCAAGTGATAA	0.552			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			7	16					0	0	0.001984	0	0	
FBXL16	146330	broad.mit.edu	37	16	744686	744686	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:744686G>C	uc002cjc.2	-	6	1442	c.1239C>G	c.(1237-1239)TTC>TTG	p.F413L	FBXL16_uc002cja.2_Missense_Mutation_p.S165W|FBXL16_uc002cjb.2_Missense_Mutation_p.F201L	NM_153350	NP_699181	Q8N461	FXL16_HUMAN	F-box and leucine-rich repeat protein 16	413	LRR 6.										0		Hepatocellular(780;0.0218)				GCTTCAGCCCGAAGTCTTGCA	0.652													3	6					0	0	0.004672	0	0	
NARFL	64428	broad.mit.edu	37	16	789666	789666	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:789666C>T	uc002cjr.2	-	2	151	c.139G>A	c.(139-141)GGG>AGG	p.G47R	NARFL_uc002cjp.2_5'Flank|NARFL_uc002cjq.2_5'UTR|NARFL_uc002cjs.2_5'UTR|NARFL_uc010brc.1_Missense_Mutation_p.G47R|NARFL_uc010uur.1_Missense_Mutation_p.G47R	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	47					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				AAGTAGCTCCCGTCATCTTCA	0.532													13	75					0	0	0.003163	0	0	
CLCN7	1186	broad.mit.edu	37	16	1498392	1498392	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:1498392G>A	uc002clv.2	-	21	2087	c.1977C>T	c.(1975-1977)AAC>AAT	p.N659N	CLCN7_uc010brq.1_Silent_p.N29N|CLCN7_uc002clu.2_Silent_p.N107N|CLCN7_uc002clw.2_Silent_p.N635N	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	659	Cytoplasmic (By similarity).|CBS 1.|ATP (By similarity).					integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				CGGGGAAGCCGTTGTGATTGG	0.627													4	25					0	0	0.009096	0	0	
CASKIN1	57524	broad.mit.edu	37	16	2239107	2239107	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:2239107G>A	uc010bsg.1	-	6	570	c.538C>T	c.(538-540)CGG>TGG	p.R180W		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	180					signal transduction	cytoplasm				skin(2)	2						TCTCCCGGCCGGGGCTCCAGC	0.652													9	33					0	0	0.004482	0	0	
CASKIN1	57524	broad.mit.edu	37	16	2240163	2240163	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:2240163G>A	uc010bsg.1	-	3	187	c.155C>T	c.(154-156)GCT>GTT	p.A52V		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	52	ANK 1.				signal transduction	cytoplasm				skin(2)	2						ATGGTGCAGAGCCGAGAAGCT	0.647													9	16					0	0	0.006214	0	0	
NTN3	4917	broad.mit.edu	37	16	2522136	2522136	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:2522136C>T	uc002cqj.2	+	1	637	c.434C>T	c.(433-435)GCC>GTC	p.A145V		NM_006181	NP_006172	O00634	NET3_HUMAN	netrin 3 precursor	145	Laminin N-terminal.				axon guidance|muscle cell differentiation|positive regulation of muscle cell differentiation	proteinaceous extracellular matrix				central_nervous_system(1)	1						CGCAGCTGGGCCCCGCTGGGC	0.667													7	32					0	0	0.003080	0	0	
ADCY9	115	broad.mit.edu	37	16	4057518	4057518	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:4057518A>T	uc002cvx.2	-	3	2274	c.1735T>A	c.(1735-1737)TCT>ACT	p.S579T		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	579	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						CTGCAGCGAGACTCCTTGGCT	0.527													18	47					0	0	0.006122	0	0	
TXNDC11	51061	broad.mit.edu	37	16	11794372	11794372	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:11794372G>C	uc010buu.1	-	7	985	c.923C>G	c.(922-924)GCG>GGG	p.A308G	TXNDC11_uc002dbg.1_Missense_Mutation_p.A281G	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	308					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						TACCAGTTTCGCAAGATGTTT	0.333													18	42					0	0	0.010504	0	0	
ABCC6P2	730013	broad.mit.edu	37	16	14916908	14916908	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:14916908C>T	uc002dcu.2	-	2	87	c.54G>A	c.(52-54)GAG>GAA	p.E18E		NR_023387				SubName: Full=ATP-binding cassette, sub-family C (CFTR/MRP), member 6; SubName: Full=Up-regulated gene 7;												0						CAGGTTCAGGCTCTGTCTGGT	0.612													4	36					0	0	0.000602	0	0	
ABCC6	368	broad.mit.edu	37	16	16297439	16297439	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:16297439C>T	uc002den.3	-	8	863	c.826G>A	c.(826-828)GGC>AGC	p.G276S	ABCC6_uc010bvo.2_RNA|ABCC6_uc010uzz.1_Missense_Mutation_p.G288S	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	276	Cytoplasmic (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		CCACTGCCGCCTTTCCTTTTA	0.582													12	37					0	0	0.001855	0	0	
MVP	9961	broad.mit.edu	37	16	29845368	29845368	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:29845368C>T	uc002dui.2	+	5	642	c.558C>T	c.(556-558)GAC>GAT	p.D186D	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010bzh.1_RNA|MVP_uc010vdz.1_Intron|MVP_uc002duj.2_Silent_p.D186D|MVP_uc010vea.1_Translation_Start_Site	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	186	MVP 4.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						GGGACCGGGACGGCAAGGAGA	0.647													7	27					0	0	0.001984	0	0	
ZNF267	10308	broad.mit.edu	37	16	31925888	31925888	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:31925888T>C	uc002ecs.3	+	4	527	c.318T>C	c.(316-318)TGT>TGC	p.C106C		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	106					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						ATGGGAGCTGTGATCTTGAGA	0.378													9	48					0	0	0.004482	0	0	
C16orf78	123970	broad.mit.edu	37	16	49433085	49433085	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:49433085T>G	uc002efr.2	+	5	737	c.694T>G	c.(694-696)TTG>GTG	p.L232V		NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970	232										central_nervous_system(1)	1						CTTGCTCAAGTTGTGCAAGGA	0.483													12	63					0	0	0.000978	0	0	
CDH11	1009	broad.mit.edu	37	16	65005503	65005503	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:65005503A>G	uc002eoi.2	-	11	2055	c.1621T>C	c.(1621-1623)TTC>CTC	p.F541L	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Missense_Mutation_p.F541L|CDH11_uc010vin.1_Missense_Mutation_p.F415L	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	541	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		CTGACTGTGAAATTTGGATTG	0.413			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			6	59					0	0	0.001168	0	0	
NUTF2	10204	broad.mit.edu	37	16	67899125	67899125	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:67899125C>T	uc002eup.2	+	2	191	c.92C>T	c.(91-93)GCA>GTA	p.A31V	NUTF2_uc010vkf.1_Missense_Mutation_p.A31V	NM_005796	NP_005787	P61970	NTF2_HUMAN	nuclear transport factor 2	31	NTF2.				protein transport	cytosol|nuclear pore	protein binding|transporter activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00443)|Epithelial(162;0.0199)|all cancers(182;0.129)		CAACTAGGCGCAATTTACGTA	0.468													7	39					0	0	0.001984	0	0	
EDC4	23644	broad.mit.edu	37	16	67917602	67917602	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:67917602T>C	uc002eur.2	+	28	4147	c.3981T>C	c.(3979-3981)TCT>TCC	p.S1327S	EDC4_uc010cer.2_Silent_p.S946S|EDC4_uc002eus.2_Silent_p.S1057S|EDC4_uc002eut.1_3'UTR|NRN1L_uc002euu.2_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	1327					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		AGCTGGCATCTGACCTTGGCA	0.597											OREG0023890	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	121					0	0	0.002445	0	0	
DHX38	9785	broad.mit.edu	37	16	72131582	72131582	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:72131582G>A	uc002fcb.2	+	4	873	c.518G>A	c.(517-519)CGG>CAG	p.R173Q	DHX38_uc010vmp.1_Intron|DHX38_uc010cgn.1_Intron	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	173					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				ATAGATGAGCGGGATAGAAGT	0.502													3	16					0	0	0.004672	0	0	
ZFHX3	463	broad.mit.edu	37	16	72829238	72829238	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:72829238C>G	uc002fck.2	-	9	8016	c.7343G>C	c.(7342-7344)GGA>GCA	p.G2448A	ZFHX3_uc002fcl.2_Missense_Mutation_p.G1534A	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2448					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CTTTGGTTGTCCTTGCTTTTC	0.562													10	47					0	0	0.006214	0	0	
ADAMTS18	170692	broad.mit.edu	37	16	77398116	77398116	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:77398116A>T	uc002ffc.3	-	5	1360	c.941T>A	c.(940-942)GTC>GAC	p.V314D	ADAMTS18_uc010chc.1_5'Flank|ADAMTS18_uc002ffe.1_Missense_Mutation_p.V10D|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	314	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						GTATGTGGTGACATTTCCCTT	0.458													25	66					0	0	0.002780	0	0	
CDH13	1012	broad.mit.edu	37	16	83159001	83159001	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:83159001A>T	uc002fgx.2	+	4	498	c.378A>T	c.(376-378)AAA>AAT	p.K126N	CDH13_uc010chh.2_Missense_Mutation_p.K126N|CDH13_uc010vns.1_Missense_Mutation_p.K173N|CDH13_uc010vnt.1_5'UTR|CDH13_uc010vnu.1_Intron	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	126					adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		ATATATTTAAATTTGCAAGAA	0.383													4	16					0	0	0.000602	0	0	
NECAB2	54550	broad.mit.edu	37	16	84030847	84030847	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:84030847C>T	uc002fhd.2	+	9	839	c.822C>T	c.(820-822)CGC>CGT	p.R274R	NECAB2_uc002fhe.2_Silent_p.R191R	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	274					antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						TGCAGCAGCGCCTGTCAGATG	0.602													8	27					0	0	0.008291	0	0	
FOXL1	2300	broad.mit.edu	37	16	86612679	86612679	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr16:86612679C>T	uc002fjr.2	+	1	565	c.350C>T	c.(349-351)CCG>CTG	p.P117L		NM_005250	NP_005241	Q12952	FOXL1_HUMAN	forkhead box L1	117	Fork-head.				brain development|camera-type eye development|cartilage development|embryo development|forelimb morphogenesis|heart development|organ morphogenesis|pattern specification process|proteoglycan biosynthetic process|regulation of sequence-specific DNA binding transcription factor activity|regulation of Wnt receptor signaling pathway|visceral mesoderm-endoderm interaction involved in midgut development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1						AAAGGGCGGCCGGGCAAGGGC	0.667													22	78					0	0	0.001882	0	0	
VPS53	55275	broad.mit.edu	37	17	534812	534812	+	Missense_Mutation	SNP	G	A	A	rs138639431	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:534812G>A	uc002frn.2	-	8	812	c.665C>T	c.(664-666)GCG>GTG	p.A222V	VPS53_uc002frk.2_5'UTR|VPS53_uc010cjo.1_Missense_Mutation_p.A222V|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Missense_Mutation_p.A193V|VPS53_uc002fro.2_Missense_Mutation_p.A24V|VPS53_uc010cjp.1_Intron	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	222					protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		GGAAGGAAACGCTTCTTCAAA	0.502													5	41					0	0	0.000602	0	0	
TRPV3	162514	broad.mit.edu	37	17	3458106	3458106	+	Silent	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:3458106G>C	uc002fvt.1	-	2	361	c.39C>G	c.(37-39)GGC>GGG	p.G13G	TRPV3_uc010vrj.1_5'UTR|TRPV3_uc010vrk.1_RNA|TRPV3_uc002fvr.2_Silent_p.G13G|TRPV3_uc002fvu.2_Silent_p.G13G	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	13	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	CAACTCTCTTGCCCATGAGAG	0.622													8	20					0	0	0.003080	0	0	
FAM64A	54478	broad.mit.edu	37	17	6350927	6350927	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:6350927G>A	uc002gcw.1	+	3	488	c.439G>A	c.(439-441)GCC>ACC	p.A147T	FAM64A_uc002gct.1_Missense_Mutation_p.A147T|FAM64A_uc002gcu.1_Missense_Mutation_p.A147T|FAM64A_uc002gcv.1_Missense_Mutation_p.A178T|FAM64A_uc002gcx.1_Missense_Mutation_p.A147T|FAM64A_uc002gcy.1_RNA|FAM64A_uc002gcz.1_RNA|FAM64A_uc002gda.1_Missense_Mutation_p.A147T|FAM64A_uc002gdb.1_Missense_Mutation_p.A147T	NM_019013	NP_061886	Q9BSJ6	FA64A_HUMAN	family with sequence similarity 64, member A	147						nucleolus	protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		GTCTGGAGCCGCCCCTGCCCA	0.652													4	23					0	0	0.009096	0	0	
TEKT1	83659	broad.mit.edu	37	17	6716254	6716254	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:6716254C>T	uc002gdt.2	-	6	858	c.748G>A	c.(748-750)GCC>ACC	p.A250T	TEKT1_uc010vth.1_Missense_Mutation_p.A104T	NM_053285	NP_444515	Q969V4	TEKT1_HUMAN	tektin 1	250					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|skin(1)	2		Myeloproliferative disorder(207;0.0255)				AGATCATTGGCTGTCTGGGAC	0.542													24	88					0	0	0.004656	0	0	
TEKT1	83659	broad.mit.edu	37	17	6716369	6716369	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:6716369G>A	uc002gdt.2	-	6	743	c.633C>T	c.(631-633)TCC>TCT	p.S211S	TEKT1_uc010vth.1_Silent_p.S65S	NM_053285	NP_444515	Q969V4	TEKT1_HUMAN	tektin 1	211					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|skin(1)	2		Myeloproliferative disorder(207;0.0255)				CCAGACTCACGGAGCTGAAAC	0.542													8	42					0	0	0.003080	0	0	
KDM6B	23135	broad.mit.edu	37	17	7754383	7754383	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:7754383G>A	uc002giw.1	+	14	4094	c.3718G>A	c.(3718-3720)GAA>AAA	p.E1240K	KDM6B_uc002gix.2_Missense_Mutation_p.E542K	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	1240					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						AGCGAGTGGCGAACACACCGT	0.627													4	18					0	0	0.009096	0	0	
GUCY2D	3000	broad.mit.edu	37	17	7917215	7917215	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:7917215C>T	uc002gjt.2	+	12	2355	c.2281C>T	c.(2281-2283)CGG>TGG	p.R761W		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	761	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				GCAGAGGGTGCGGAGCCCCCC	0.622													14	53					0	0	0.001855	0	0	
MYH1	4619	broad.mit.edu	37	17	10402102	10402102	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:10402102C>T	uc002gmo.2	-	30	4116	c.4022G>A	c.(4021-4023)CGC>CAC	p.R1341H	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1341	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						ACAGTCATGGCGGGAGGACTG	0.502													13	69					0	0	0.003163	0	0	
SREBF1	6720	broad.mit.edu	37	17	17723594	17723594	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:17723594C>T	uc002gru.1	-	2	527	c.333G>A	c.(331-333)CCG>CCA	p.P111P	SREBF1_uc002grp.1_5'Flank|SREBF1_uc002grq.1_5'UTR|SREBF1_uc002grr.1_5'UTR|SREBF1_uc002grs.1_Silent_p.P87P|SREBF1_uc002grt.1_Silent_p.P141P|SREBF1_uc010cpp.1_Silent_p.P87P|SREBF1_uc010cpq.1_Silent_p.P111P	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	111	Pro/Ser-rich.|Cytoplasmic (Potential).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						CGGGCATGGACGGGTACATCT	0.652													7	50					0	0	0.006214	0	0	
SMCR8	140775	broad.mit.edu	37	17	18220056	18220056	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:18220056A>C	uc002gsy.3	+	1	1463	c.953A>C	c.(952-954)AAG>ACG	p.K318T		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	318										central_nervous_system(1)	1						TTTGACAAGAAGTTGAAGACC	0.483													11	57					0	0	0.008291	0	0	
USP22	23326	broad.mit.edu	37	17	20921343	20921343	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:20921343C>T	uc002gym.3	-	5	806	c.602G>A	c.(601-603)CGG>CAG	p.R201Q	USP22_uc002gyn.3_Missense_Mutation_p.R189Q|USP22_uc002gyl.3_Missense_Mutation_p.R96Q	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	201					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1						GAAGAAGTCCCGCAGAAGTGG	0.567													13	65					0	0	0.004007	0	0	
POLDIP2	26073	broad.mit.edu	37	17	26675234	26675234	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:26675234G>C	uc002haz.2	-	14	1148	c.1016C>G	c.(1015-1017)CCT>CGT	p.P339R	POLDIP2_uc010wag.1_RNA	NM_015584	NP_056399	Q9Y2S7	PDIP2_HUMAN	DNA polymerase delta interacting protein 2	339	ApaG.					mitochondrial nucleoid|nucleus					0	all_lung(13;0.000354)|Lung NSC(42;0.00115)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		GGAGCCATCAGGTCTTTCAAA	0.542													5	29					0	0	0.000602	0	0	
MYO18A	399687	broad.mit.edu	37	17	27413999	27413999	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:27413999C>G	uc002hdt.1	-	38	5825	c.5667G>C	c.(5665-5667)GAG>GAC	p.E1889D	MYO18A_uc010wbc.1_Missense_Mutation_p.E1422D|MYO18A_uc002hds.2_Missense_Mutation_p.E1431D|MYO18A_uc010csa.1_Missense_Mutation_p.E1852D|MYO18A_uc002hdu.1_Missense_Mutation_p.E1889D	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1889	Potential.			E -> G (in Ref. 3; CAI45931).	anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			TCCTGGCAAGCTCGCCCATCT	0.642													6	23					0	0	0.001984	0	0	
MYO18A	399687	broad.mit.edu	37	17	27442109	27442109	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:27442109T>A	uc002hdt.1	-	14	2485	c.2327A>T	c.(2326-2328)AAG>ATG	p.K776M	MYO18A_uc010wbc.1_Missense_Mutation_p.K318M|MYO18A_uc002hds.2_Missense_Mutation_p.K318M|MYO18A_uc010csa.1_Missense_Mutation_p.K776M|MYO18A_uc002hdu.1_Missense_Mutation_p.K776M|MYO18A_uc010wbd.1_Missense_Mutation_p.K445M	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	776	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CTGGCTGGACTTGAGAGCCCT	0.652													6	8					0	0	0.001984	0	0	
SSH2	85464	broad.mit.edu	37	17	27958633	27958633	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:27958633G>A	uc002heo.1	-	15	3498	c.3498C>T	c.(3496-3498)AGC>AGT	p.S1166S	SSH2_uc010wbh.1_Silent_p.S1193S	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	1166					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						TGGAGAGAGGGCTCTCCTGAC	0.517													10	55					0	0	0.008291	0	0	
ZNF207	7756	broad.mit.edu	37	17	30685633	30685633	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:30685633C>G	uc002hhh.3	+	3	428	c.280C>G	c.(280-282)CGA>GGA	p.R94G	ZNF207_uc002hhj.3_Missense_Mutation_p.R94G|ZNF207_uc002hhi.3_Missense_Mutation_p.R94G|ZNF207_uc010csz.2_Missense_Mutation_p.R97G|ZNF207_uc002hhk.1_Missense_Mutation_p.R94G|ZNF207_uc002hhl.1_5'Flank	NM_003457	NP_003448	O43670	ZN207_HUMAN	zinc finger protein 207 isoform a	94						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			GGATGAAAGACGACGACTTCT	0.269													18	75					0	0	0.008871	0	0	
LIG3	3980	broad.mit.edu	37	17	33323671	33323671	+	Nonsense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:33323671A>T	uc002hik.1	+	11	1930	c.1822A>T	c.(1822-1824)AGA>TGA	p.R608*	LIG3_uc002hij.2_Nonsense_Mutation_p.R608*	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	608					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	CTTGATGGACAGGTGAGTTGG	0.443								Other_BER_factors					19	122					0	0	0.008871	0	0	
RFFL	117584	broad.mit.edu	37	17	33338995	33338995	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:33338995G>A	uc002hin.1	-	7	1257	c.1084C>T	c.(1084-1086)CGG>TGG	p.R362W	RFFL_uc002hiq.2_Missense_Mutation_p.R271W|RFFL_uc002him.1_Missense_Mutation_p.R354W|RFFL_uc010cti.1_Missense_Mutation_p.R368W|RFFL_uc002hip.1_Missense_Mutation_p.R326W|RFFL_uc002hio.1_Missense_Mutation_p.R362W	NM_001017368	NP_001017368	Q8WZ73	RFFL_HUMAN	rififylin	362					apoptosis	membrane	ligase activity|zinc ion binding				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		TCTCAGGACCGGAAGACATGC	0.542													6	56					0	0	0.003080	0	0	
KRTAP9-4	85280	broad.mit.edu	37	17	39406320	39406320	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:39406320C>A	uc002hwi.2	+	1	382	c.348C>A	c.(346-348)TGC>TGA	p.C116*	KRTAP9-9_uc010wfq.1_Intron	NM_033191	NP_149461	Q9BYQ2	KRA94_HUMAN	keratin associated protein 9-4	116	15 X 5 AA repeats of C-C-[RQVGE]-[SPTN]- [TASPF].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			TGCCTGGTTGCCTAAACCAGA	0.612													62	181					1.80625e-27	2.12279e-27	0.003610	1	0	
KRT31	3881	broad.mit.edu	37	17	39551161	39551161	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:39551161G>A	uc002hwn.2	-	6	1089	c.1036C>T	c.(1036-1038)CGT>TGT	p.R346C	KRT31_uc010cxn.2_Missense_Mutation_p.R346C	NM_002277	NP_002268	Q15323	K1H1_HUMAN	keratin 31	346	Coil 2.|Rod.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000496)				AGCCGGGCACGCACATCCAGC	0.592													24	130					0	0	0.003954	0	0	
Unknown	0	broad.mit.edu	37	17	39564977	39564977	+	RNA	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:39564977G>C	uc002hwo.1	+	2		c.398G>C								Homo sapiens cDNA FLJ41849 fis, clone NT2RI3003409.																		AGGTTGTCTAGCACCCTGCGC	0.582													6	23					0	0	0.001168	0	0	
GPATCH8	23131	broad.mit.edu	37	17	42541896	42541896	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:42541896C>T	uc002igw.1	-	3	201	c.137G>A	c.(136-138)CGC>CAC	p.R46H	GPATCH8_uc002igv.1_5'UTR|GPATCH8_uc010wiz.1_5'UTR	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	46	G-patch.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		CTGGAGTAAGCGGTGTCCAAT	0.393													60	120					0	0	0.003610	0	0	
KIAA1267	284058	broad.mit.edu	37	17	44248449	44248449	+	Nonsense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:44248449A>T	uc002ikb.2	-	1	1146	c.1061T>A	c.(1060-1062)TTG>TAG	p.L354*	KIAA1267_uc002ikc.2_Nonsense_Mutation_p.L354*|KIAA1267_uc002ikd.2_Nonsense_Mutation_p.L354*|KIAA1267_uc010dav.2_Nonsense_Mutation_p.L354*	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	354						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				AGCTTTTCTCAAGGCAGCTTC	0.463													12	146					0	0	0.000978	0	0	
KIAA1267	284058	broad.mit.edu	37	17	44248642	44248642	+	Nonsense_Mutation	SNP	G	A	A	rs149830411		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:44248642G>A	uc002ikb.2	-	1	953	c.868C>T	c.(868-870)CGA>TGA	p.R290*	KIAA1267_uc002ikc.2_Nonsense_Mutation_p.R290*|KIAA1267_uc002ikd.2_Nonsense_Mutation_p.R290*|KIAA1267_uc010dav.2_Nonsense_Mutation_p.R290*	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	290	Potential.					MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				TCAGCCTGTCGCCGCAGTAAA	0.488													7	109					0	0	0.001984	0	0	
NSF	4905	broad.mit.edu	37	17	44827207	44827207	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:44827207C>T	uc002iku.2	+	18	2081	c.1977C>T	c.(1975-1977)AAC>AAT	p.N659N	NSF_uc010wke.1_Silent_p.N565N|NSF_uc010wkf.1_Silent_p.N565N|NSF_uc010wkg.1_Silent_p.N654N	NM_006178	NP_006169	P46459	NSF_HUMAN	vesicle-fusing ATPase	659					protein transport|synaptic transmission	cytosol	ATP binding|metal ion binding			ovary(1)	1		Melanoma(429;0.203)	BRCA - Breast invasive adenocarcinoma(9;0.0257)	BRCA - Breast invasive adenocarcinoma(366;0.241)		AAATGCTTAACGCTTTCAGCA	0.458													34	62					0	0	0.003271	0	0	
WNT3	7473	broad.mit.edu	37	17	44846085	44846085	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:44846085C>T	uc002ikv.2	-	4	788	c.669G>A	c.(667-669)GCG>GCA	p.A223A		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	223					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			AGTCAGGCTGCGCCCACCAGC	0.602													21	47					0	0	0.010504	0	0	
PHB	5245	broad.mit.edu	37	17	47482484	47482484	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:47482484G>C	uc002iox.1	-	7	762	c.689C>G	c.(688-690)ACT>AGT	p.T230S		NM_002634	NP_002625	P35232	PHB_HUMAN	prohibitin	230					cellular response to interleukin-6|DNA replication|glucocorticoid receptor signaling pathway|histone deacetylation|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|progesterone receptor signaling pathway|regulation of apoptosis	integral to plasma membrane|mitochondrial inner membrane|nucleoplasm	histone deacetylase binding|transcription regulatory region DNA binding				0	all_cancers(4;2.62e-14)|Breast(4;4.21e-29)|all_epithelial(4;6.9e-18)		Epithelial(5;8.1e-06)|all cancers(6;7.71e-05)			ATCCCCTGCAGTGGCCAGTGA	0.592													3	21					0	0	0.004672	0	0	
C17orf71	55181	broad.mit.edu	37	17	57288479	57288479	+	Missense_Mutation	SNP	G	T	T	rs148740401		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:57288479G>T	uc002ixi.2	+	1	1109	c.1067G>T	c.(1066-1068)AGG>ATG	p.R356M		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	356					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					GACCAACTTAGGAGTCATTGT	0.537													10	71					2.17888e-05	2.34841e-05	0.006214	1	0	
DCAF7	10238	broad.mit.edu	37	17	61660984	61660984	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:61660984G>A	uc002jbc.2	+	6	866	c.649G>A	c.(649-651)GAA>AAA	p.E217K	DCAF7_uc002jbb.2_RNA|DCAF7_uc010wpn.1_Intron	NM_005828	NP_005819	P61962	DCAF7_HUMAN	WD-repeat protein	217					multicellular organismal development	CUL4 RING ubiquitin ligase complex|cytoplasm|nucleus	protein binding			ovary(1)	1						CATCATTTACGAAGACCCACA	0.592													5	48					0	0	0.000602	0	0	
MAP3K3	4215	broad.mit.edu	37	17	61770978	61770978	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:61770978C>T	uc002jbg.2	+	16	2041	c.1722C>T	c.(1720-1722)GCC>GCT	p.A574A	MAP3K3_uc002jbe.2_Silent_p.A605A|MAP3K3_uc002jbf.2_Silent_p.A605A|MAP3K3_uc002jbh.2_Silent_p.A601A|MAP3K3_uc010wpo.1_Silent_p.A489A|MAP3K3_uc010wpp.1_Silent_p.A570A	NM_002401	NP_002392	Q99759	M3K3_HUMAN	mitogen-activated protein kinase kinase kinase 3	574	Protein kinase.				MAPKKK cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autophosphorylation	cytosol	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			lung(3)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)	6						AAGCTATGGCCGCCATCTTCA	0.582													18	72					0	0	0.006122	0	0	
FTSJ3	117246	broad.mit.edu	37	17	61899483	61899483	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:61899483A>G	uc002jbz.2	-	13	1414	c.1336T>C	c.(1336-1338)TTT>CTT	p.F446L	FTSJ3_uc002jca.2_Missense_Mutation_p.F446L	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	446					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1						TCGGACAGAAATGTGTCTGCT	0.418													15	87					0	0	0.004007	0	0	
BPTF	2186	broad.mit.edu	37	17	65924597	65924597	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:65924597A>T	uc002jgf.2	+	16	5939	c.5878A>T	c.(5878-5880)ACT>TCT	p.T1960S	BPTF_uc002jge.2_Missense_Mutation_p.T2086S	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2086					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			CTCAGTTACAACTGGAACCAA	0.433													7	52					0	0	0.001984	0	0	
WIPI1	55062	broad.mit.edu	37	17	66446986	66446986	+	Silent	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:66446986C>G	uc010dey.2	-	3	307	c.216G>C	c.(214-216)GTG>GTC	p.V72V	WIPI1_uc002jhd.3_RNA|WIPI1_uc010wqo.1_5'UTR|WIPI1_uc002jhe.3_RNA	NM_017983	NP_060453	Q5MNZ9	WIPI1_HUMAN	WD repeat domain, phosphoinositide interacting	72					macroautophagy|vesicle targeting, trans-Golgi to endosome	autophagic vacuole membrane|clathrin-coated vesicle|cytosol|endosome membrane|PAS complex|pre-autophagosomal structure membrane|trans-Golgi network	androgen receptor binding|estrogen receptor binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding				0						TGACTACCACCACCAGGCTGC	0.502													14	103					0	0	0.002450	0	0	
CD300LB	124599	broad.mit.edu	37	17	72518885	72518885	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:72518885C>A	uc002jkx.2	-	4	722	c.709G>T	c.(709-711)GCC>TCC	p.A237S		NM_174892	NP_777552	A8K4G0	CLM7_HUMAN	CD300 molecule-like family member b	200	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)	1						CTCTAAGTGGCCATGTCTTTA	0.557													25	54					5.61819e-17	6.55714e-17	0.005443	1	0	
CD300LF	146722	broad.mit.edu	37	17	72700807	72700807	+	Silent	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:72700807G>T	uc002jlg.2	-	2	295	c.192C>A	c.(190-192)ATC>ATA	p.I64I	RAB37_uc002jlc.2_Intron|RAB37_uc010dfu.2_Intron|RAB37_uc002jld.2_Intron|CD300LF_uc002jlf.2_Silent_p.I67I|CD300LF_uc010dfw.2_RNA|CD300LF_uc002jlh.2_Silent_p.I64I|CD300LF_uc002jli.2_Silent_p.I67I|CD300LF_uc010wra.1_Silent_p.I64I|CD300LF_uc002jlj.1_Silent_p.I67I	NM_139018	NP_620587	Q8TDQ1	CLM1_HUMAN	NK inhibitory receptor precursor	64	Ig-like V-type.|Extracellular (Potential).			I -> V (in Ref. 5; AAZ81566).		integral to membrane|plasma membrane	receptor activity			upper_aerodigestive_tract(1)	1						TTTTAACAAGGATCTTGCAGT	0.537													53	165					6.3091e-27	7.40443e-27	0.003610	1	0	
CASKIN2	57513	broad.mit.edu	37	17	73498180	73498180	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:73498180C>T	uc002joc.2	-	18	3525	c.2975G>A	c.(2974-2976)CGG>CAG	p.R992Q	CASKIN2_uc010wsc.1_Missense_Mutation_p.R910Q	NM_020753	NP_065804	Q8WXE0	CSKI2_HUMAN	cask-interacting protein 2 isoform a	992	Pro-rich.					cytoplasm				pancreas(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			CTTGGGCCTCCGCTTAACAGT	0.682													4	40					0	0	0.009096	0	0	
FBF1	85302	broad.mit.edu	37	17	73924169	73924169	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:73924169G>A	uc002jqc.2	-	7	617	c.343C>T	c.(343-345)CCC>TCC	p.P115S	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Missense_Mutation_p.P105S|FBF1_uc002jqd.1_Missense_Mutation_p.P115S	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	115											0						GCAGGCTTGGGGTGGTTGGGC	0.537													14	29					0	0	0.002450	0	0	
CCDC40	55036	broad.mit.edu	37	17	78069165	78069165	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:78069165G>A	uc010dht.2	+	18	2963	c.2936G>A	c.(2935-2937)CGC>CAC	p.R979H	CCDC40_uc002jxm.3_Missense_Mutation_p.R762H|CCDC40_uc002jxn.3_Missense_Mutation_p.R375H	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	979					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GAGGGGCAGCGCAAGATGGAC	0.637													18	56					0	0	0.004990	0	0	
RNF213	57674	broad.mit.edu	37	17	78358856	78358856	+	Silent	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:78358856G>T	uc002jyh.1	+	35	8782	c.8559G>T	c.(8557-8559)CTG>CTT	p.L2853L	uc002jyi.1_Intron|RNF213_uc010dhx.1_5'Flank	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AGCTGAGGCTGGTAAAGTTCC	0.463													29	67					5.77227e-19	6.76501e-19	0.008361	1	0	
AZI1	22994	broad.mit.edu	37	17	79173612	79173612	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:79173612C>A	uc002jzp.1	-	9	1130	c.930G>T	c.(928-930)GAG>GAT	p.E310D	AZI1_uc002jzm.1_5'Flank|AZI1_uc002jzn.1_Missense_Mutation_p.E310D|AZI1_uc002jzo.1_Missense_Mutation_p.E310D|AZI1_uc010wum.1_Missense_Mutation_p.E310D	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	310					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			AGAGGGTCCCCTCGCCTGACC	0.627													12	91					4.3838e-07	4.84858e-07	0.001855	1	0	
SLC38A10	124565	broad.mit.edu	37	17	79220832	79220832	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr17:79220832C>T	uc002jzz.1	-	15	2470	c.2095G>A	c.(2095-2097)GCC>ACC	p.A699T	SLC38A10_uc002jzy.1_Missense_Mutation_p.A617T	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	699					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			AGCAGGACGGCGTGGTCCAGC	0.627													8	18					0	0	0.004482	0	0	
NDC80	10403	broad.mit.edu	37	18	2595494	2595494	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:2595494C>T	uc002kli.2	+	11	1277	c.1095C>T	c.(1093-1095)GAC>GAT	p.D365D		NM_006101	NP_006092	O14777	NDC80_HUMAN	kinetochore associated 2	365	Interaction with the N-terminus of CDCA1.|Interaction with PSMC2 and SMC1A.|Potential.|Interaction with NEK2 and ZWINT.|Interaction with SMC1A.				attachment of spindle microtubules to kinetochore|cell division|establishment of mitotic spindle orientation|mitotic prometaphase|mitotic sister chromatid segregation|mitotic spindle organization|phosphatidylinositol-mediated signaling	condensed nuclear chromosome outer kinetochore|cytosol|Ndc80 complex	protein binding			ovary(1)	1						CAGTTGCAGACATTGAGCGAA	0.363													7	58					0	0	0.003080	0	0	
TMEM200C	645369	broad.mit.edu	37	18	5892008	5892008	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:5892008G>A	uc002kmx.1	-	1	96	c.55C>T	c.(55-57)CGC>TGC	p.R19C		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	19						integral to membrane					0						CTTGGGGGGCGGAGTGGATCC	0.607													5	20					0	0	0.001984	0	0	
LAMA1	284217	broad.mit.edu	37	18	6955431	6955431	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:6955431C>T	uc002knm.2	-	57	8222	c.8128G>A	c.(8128-8130)GTT>ATT	p.V2710I	LAMA1_uc002knk.2_Missense_Mutation_p.V40I|LAMA1_uc002knl.2_Missense_Mutation_p.V163I|LAMA1_uc010wzj.1_Missense_Mutation_p.V2186I	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2710					axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCGCCGGGAACGTACTCCAGA	0.527													7	23					0	0	0.006214	0	0	
LAMA1	284217	broad.mit.edu	37	18	7024437	7024437	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:7024437C>T	uc002knm.2	-	18	2525	c.2431G>A	c.(2431-2433)GGA>AGA	p.G811R	LAMA1_uc010wzj.1_Missense_Mutation_p.G287R	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	811	Laminin EGF-like 7.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACTTCATCTCCATCATTGAGG	0.433													3	19					0	0	0.000602	0	0	
LAMA1	284217	broad.mit.edu	37	18	7049125	7049125	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:7049125G>A	uc002knm.2	-	5	814	c.720C>T	c.(718-720)ACC>ACT	p.T240T	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	240	Laminin N-terminal.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGTGGCTAAGGGTCATGAGAT	0.448													8	64					0	0	0.006214	0	0	
VAPA	9218	broad.mit.edu	37	18	9931887	9931887	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:9931887A>G	uc002kok.2	+	2	459	c.160A>G	c.(160-162)ACA>GCA	p.T54A	VAPA_uc002koj.2_Missense_Mutation_p.T54A	NM_194434	NP_919415	Q9P0L0	VAPA_HUMAN	vesicle-associated membrane protein-associated	54	Cytoplasmic (Potential).|MSP.				cell death|cellular membrane fusion|neuron projection development|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein localization in endoplasmic reticulum|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane|vesicle	protein heterodimerization activity|signal transducer activity|structural molecule activity				0						AGTGAAGACTACAGCACCTCG	0.403													9	61					0	0	0.004482	0	0	
APCDD1	147495	broad.mit.edu	37	18	10487638	10487638	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:10487638A>G	uc002kom.3	+	5	1502	c.1148A>G	c.(1147-1149)AAC>AGC	p.N383S		NM_153000	NP_694545	Q8J025	APCD1_HUMAN	adenomatosis polyposis coli down-regulated 1	383	Extracellular (Potential).				hair follicle development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to plasma membrane	Wnt-protein binding				0				READ - Rectum adenocarcinoma(15;0.08)		TCACTGCTCAACGTCTTCAAC	0.597													5	58					0	0	0.000602	0	0	
RBBP8	5932	broad.mit.edu	37	18	20586340	20586340	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:20586340C>G	uc002ktw.2	+	16	2633	c.2302C>G	c.(2302-2304)CAA>GAA	p.Q768E	RBBP8_uc002kty.2_Missense_Mutation_p.Q768E|RBBP8_uc002ktz.2_Missense_Mutation_p.Q768E|RBBP8_uc002kua.2_Missense_Mutation_p.Q773E|RBBP8_uc010xap.1_Missense_Mutation_p.Q106E	NM_002894	NP_002885	Q99708	COM1_HUMAN	retinoblastoma binding protein 8 isoform a	768					cell cycle checkpoint|DNA double-strand break processing involved in repair via single-strand annealing|meiosis|regulation of transcription from RNA polymerase II promoter	nucleus	damaged DNA binding|protein binding|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)|lung(1)|skin(1)	3	all_cancers(21;4.34e-05)|all_epithelial(16;8.3e-07)|Lung NSC(20;0.0107)|Colorectal(14;0.0202)|all_lung(20;0.0291)|Ovarian(20;0.19)		OV - Ovarian serous cystadenocarcinoma(1;0.00196)			TGGTGATAAACAAGACAAAGT	0.338								Direct_reversal_of_damage|Homologous_recombination					16	43					0	0	0.003163	0	0	
DSG4	147409	broad.mit.edu	37	18	28979459	28979459	+	Silent	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:28979459A>T	uc002kwq.2	+	9	1365	c.1230A>T	c.(1228-1230)ACA>ACT	p.T410T	DSG4_uc002kwr.2_Silent_p.T410T	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	410	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TGCTTGGCACATATACAGCCA	0.398													19	70					0	0	0.010504	0	0	
DSG3	1830	broad.mit.edu	37	18	29038540	29038540	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:29038540C>T	uc002kws.2	+	4	458	c.349C>T	c.(349-351)CGG>TGG	p.R117W		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	117	Extracellular (Potential).|Cadherin 1.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TATAGTCGACCGGGAGGAAAC	0.453													11	36					0	0	0.001368	0	0	
TTR	7276	broad.mit.edu	37	18	29178579	29178579	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:29178579G>A	uc002kwx.3	+	4	521	c.385G>A	c.(385-387)GCC>ACC	p.A129T		NM_000371	NP_000362	P02766	TTHY_HUMAN	transthyretin precursor	129			A -> T (in HTDE; increased affinity for thyroxine).		transport	cytoplasm	hormone activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.00523)		Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Diflunisal(DB00861)|Dimethyl sulfoxide(DB01093)|Levothyroxine(DB00451)|Liothyronine(DB00279)	CACCATTGCCGCCCTGCTGAG	0.577													5	35					0	0	0.004482	0	0	
RNF125	54941	broad.mit.edu	37	18	29617149	29617149	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:29617149C>G	uc002kxf.1	+	2	617	c.235C>G	c.(235-237)CTT>GTT	p.L79V		NM_017831	NP_060301	Q96EQ8	RN125_HUMAN	ring finger protein 125	79					negative regulation of type I interferon production	intracellular	ligase activity|zinc ion binding				0						CCGGGCATATCTTCCTTCAGA	0.448													42	223					0	0	0.009718	0	0	
DSEL	92126	broad.mit.edu	37	18	65180002	65180002	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr18:65180002T>C	uc002lke.1	-	2	3098	c.1874A>G	c.(1873-1875)AAG>AGG	p.K625R		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	615						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				ATTCATAAACTTATATGGGAT	0.348													11	55					0	0	0.008291	0	0	
TCF3	6929	broad.mit.edu	37	19	1615428	1615428	+	Silent	SNP	G	A	A	rs1052768		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:1615428G>A	uc002ltr.2	-	18	1745	c.1678C>T	c.(1678-1680)CTG>TTG	p.L560L	TCF3_uc002ltn.2_Intron|TCF3_uc002lto.2_Silent_p.L321L|TCF3_uc002ltt.3_Intron|TCF3_uc002ltq.2_Silent_p.L564L|TCF3_uc002lts.1_Intron	NM_003200	NP_003191	P15923	TFE2_HUMAN	transcription factor 3 isoform E12	560	Basic motif.				B cell lineage commitment|B cell lineage commitment|G1 phase of mitotic cell cycle|immunoglobulin V(D)J recombination|muscle cell differentiation|positive regulation of B cell proliferation|positive regulation of cell cycle|positive regulation of muscle cell differentiation|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus|protein complex|transcription factor complex	bHLH transcription factor binding|DNA binding|E-box binding|identical protein binding|mitogen-activated protein kinase kinase kinase binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|vitamin D response element binding			lung(2)|breast(2)|ovary(1)|large_intestine(1)|skin(1)	7		Acute lymphoblastic leukemia(61;5.94e-12)|all_hematologic(61;1.27e-07)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGACCCGCAGCCGCTCCCGG	0.642			T	PBX1|HLF|TFPT	pre B-ALL								13	102					0	0	0.001855	0	0	
JSRP1	126306	broad.mit.edu	37	19	2252963	2252963	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:2252963G>T	uc002lvi.1	-	5	511	c.476C>A	c.(475-477)CCC>CAC	p.P159H	JSRP1_uc002lvj.1_Missense_Mutation_p.P159H	NM_144616	NP_653217	Q96MG2	JSPR1_HUMAN	junctional sarcoplasmic reticulum protein 1	159	Pro-rich.					sarcoplasmic reticulum membrane				pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGGGCTCGGGCACACGTGC	0.682													3	9					0.004672	0.00482621	0.004672	1	0	
ZNF57	126295	broad.mit.edu	37	19	2917677	2917677	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:2917677G>A	uc002lwr.2	+	4	1206	c.1058G>A	c.(1057-1059)GGT>GAT	p.G353D	ZNF57_uc010xha.1_Missense_Mutation_p.G321D	NM_173480	NP_775751	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	353	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		TCATTCCAAGGTCATTTGAGG	0.448													12	56					0	0	0.000978	0	0	
CHAF1A	10036	broad.mit.edu	37	19	4409294	4409294	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:4409294C>T	uc002mal.2	+	3	598	c.498C>T	c.(496-498)AAC>AAT	p.N166N		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	166	Binds to CBX1 chromo shadow domain.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		CCATTCAGAACGACAAGTTGG	0.527								Chromatin_Structure					13	69					0	0	0.001368	0	0	
LRG1	116844	broad.mit.edu	37	19	4538912	4538912	+	Silent	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:4538912C>A	uc002mau.2	-	2	95	c.84G>T	c.(82-84)CTG>CTT	p.L28L	PLIN5_uc002mat.1_Intron	NM_052972	NP_443204	P02750	A2GL_HUMAN	leucine-rich alpha-2-glycoprotein 1 precursor	28						extracellular region|membrane				ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGCTGCCAACAGCAGCAGCA	0.552													7	68					0.00307968	0.0032009	0.003080	1	0	
ZNF358	140467	broad.mit.edu	37	19	7585755	7585755	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:7585755A>G	uc002mgn.2	+	2	1797	c.1627A>G	c.(1627-1629)ACT>GCT	p.T543A	MCOLN1_uc010dvh.1_5'Flank|MCOLN1_uc002mgo.2_5'Flank|MCOLN1_uc002mgp.2_5'Flank	NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	543					embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						CACTCGTGGCACTGTCAGCCC	0.657													17	48					0	0	0.007413	0	0	
MYO1F	4542	broad.mit.edu	37	19	8612926	8612926	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:8612926G>A	uc002mkg.2	-	12	1377	c.1263C>T	c.(1261-1263)GCC>GCT	p.A421A	MYO1F_uc002mkh.2_3'UTR	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	421	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						CCACCTGCTCGGCCTTCAGGG	0.557													18	72					0	0	0.004990	0	0	
ZNF558	148156	broad.mit.edu	37	19	8932690	8932690	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:8932690T>A	uc002mkn.1	-	2	339	c.109A>T	c.(109-111)AGC>TGC	p.S37C	ZNF558_uc010xkh.1_5'Flank|ZNF558_uc010dwg.1_Missense_Mutation_p.S37C	NM_144693	NP_653294	Q96NG5	ZN558_HUMAN	zinc finger protein 558	37					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1						CGTAGCCAGCTTGTCAGGAGC	0.537													17	91					0	0	0.002299	0	0	
MUC16	94025	broad.mit.edu	37	19	9076901	9076901	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:9076901A>G	uc002mkp.2	-	3	10749	c.10545T>C	c.(10543-10545)CAT>CAC	p.H3515H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3516	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTGAGATAGATGCCCAGCAG	0.517													19	99					0	0	0.008871	0	0	
MUC16	94025	broad.mit.edu	37	19	9082878	9082878	+	Silent	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:9082878A>C	uc002mkp.2	-	1	9141	c.8937T>G	c.(8935-8937)ACT>ACG	p.T2979T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2980	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGTTCCTGAAGTGGGGACTC	0.502													19	92					0	0	0.007413	0	0	
MUC16	94025	broad.mit.edu	37	19	9085752	9085752	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:9085752A>G	uc002mkp.2	-	1	6267	c.6063T>C	c.(6061-6063)TCT>TCC	p.S2021S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2021	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGCTTCCAGAAGAGACTGAAT	0.468													12	75					0	0	0.000978	0	0	
ZNF121	7675	broad.mit.edu	37	19	9677679	9677679	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:9677679T>C	uc010xkp.1	-	4	342	c.110A>G	c.(109-111)GAC>GGC	p.D37G	ZNF121_uc010dwt.2_Missense_Mutation_p.D37G|ZNF121_uc010xkq.1_Missense_Mutation_p.D37G	NM_001008727	NP_001008727	P58317	ZN121_HUMAN	zinc finger protein 121	37					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GTCATAAGTGTCCCCTGTATT	0.438													13	44					0	0	0.001368	0	0	
FBXL12	54850	broad.mit.edu	37	19	9921757	9921757	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:9921757G>C	uc002mme.2	-	3	1038	c.796C>G	c.(796-798)CCA>GCA	p.P266A	FBXL12_uc002mmd.2_Missense_Mutation_p.P213A|FBXL12_uc002mmf.2_Missense_Mutation_p.P213A|FBXL12_uc002mmg.2_Missense_Mutation_p.P213A|FBXL12_uc002mmh.2_Missense_Mutation_p.P213A	NM_017703	NP_060173	Q9NXK8	FXL12_HUMAN	F-box and leucine-rich repeat protein 12	266	LRR 8.						protein binding			lung(1)|kidney(1)	2						GGCATTTCTGGGGTGACGAGG	0.662													3	18					0	0	0.004672	0	0	
DNMT1	1786	broad.mit.edu	37	19	10250779	10250779	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:10250779C>T	uc002mng.2	-	32	3881	c.3701G>A	c.(3700-3702)CGC>CAC	p.R1234H	DNMT1_uc002mne.2_RNA|DNMT1_uc002mnf.2_Missense_Mutation_p.R158H|DNMT1_uc010xlc.1_Missense_Mutation_p.R1250H|DNMT1_uc002mnh.2_Missense_Mutation_p.R1129H|DNMT1_uc010xld.1_Missense_Mutation_p.R1234H	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1234	Catalytic.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	CGAATTGAAGCGGTTCATGCC	0.642													6	40					0	0	0.003080	0	0	
YIPF2	78992	broad.mit.edu	37	19	11034007	11034007	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:11034007G>A	uc002mqb.2	-	9	1035	c.911C>T	c.(910-912)GCG>GTG	p.A304V	YIPF2_uc002mqc.2_Missense_Mutation_p.A304V	NM_024029	NP_076934	Q9BWQ6	YIPF2_HUMAN	Yip1 domain family, member 2	304	Lumenal (Potential).					integral to membrane|transport vesicle					0						AGGGGACAGCGCGATGTTTGA	0.627													11	73					0	0	0.000978	0	0	
DOCK6	57572	broad.mit.edu	37	19	11363483	11363483	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:11363483G>A	uc002mqs.3	-	3	325	c.284C>T	c.(283-285)ACG>ATG	p.T95M		NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	95					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CCCGGGCTCCGTGGTCCGGCA	0.607													7	20					0	0	0.001984	0	0	
ECSIT	51295	broad.mit.edu	37	19	11624073	11624073	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:11624073G>A	uc002msb.2	-	4	670	c.536C>T	c.(535-537)ACG>ATG	p.T179M	ECSIT_uc002msa.1_RNA|ECSIT_uc010dyc.1_Missense_Mutation_p.T179M|ECSIT_uc010dyd.2_Missense_Mutation_p.T179M|ECSIT_uc010xma.1_Intron	NM_016581	NP_057665	Q9BQ95	ECSIT_HUMAN	evolutionarily conserved signaling intermediate	179					innate immune response|regulation of oxidoreductase activity	mitochondrion	oxidoreductase activity, acting on NADH or NADPH|protein binding			ovary(1)	1						CAGGAACTCCGTCTCCTTGTT	0.537													12	39					0	0	0.000978	0	0	
ZNF333	84449	broad.mit.edu	37	19	14829686	14829686	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:14829686G>A	uc002mzn.2	+	12	1681	c.1547G>A	c.(1546-1548)CGG>CAG	p.R516Q	ZNF333_uc002mzk.3_Missense_Mutation_p.R407Q	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	516	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	p.R516W(1)		ovary(1)|central_nervous_system(1)|pancreas(1)	3						AAGCCCTTCCGGACGAGCACT	0.517													5	65					0	0	0.001168	0	0	
EMR2	30817	broad.mit.edu	37	19	14877174	14877174	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:14877174G>A	uc002mzp.1	-	7	963	c.507C>T	c.(505-507)TCC>TCT	p.S169S	EMR2_uc010dzs.1_5'Flank|EMR2_uc010xnw.1_Silent_p.S169S|EMR2_uc002mzo.1_Silent_p.S169S|EMR2_uc002mzq.1_Intron|EMR2_uc002mzr.1_Intron|EMR2_uc002mzs.1_Intron|EMR2_uc002mzt.1_Intron|EMR2_uc002mzu.1_Intron|EMR2_uc010xnx.1_Intron|EMR2_uc010xny.1_Intron	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	169	EGF-like 4; calcium-binding (Potential).|Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GGTTTTGTCCGGAGGTGCATT	0.627													17	63					0	0	0.004990	0	0	
SYDE1	85360	broad.mit.edu	37	19	15224418	15224418	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:15224418C>T	uc002nah.1	+	8	1883	c.1852C>T	c.(1852-1854)CCC>TCC	p.P618S	SYDE1_uc002nai.1_Missense_Mutation_p.P551S|SYDE1_uc002naj.1_Missense_Mutation_p.P275S	NM_033025	NP_149014	Q6ZW31	SYDE1_HUMAN	synapse defective 1, Rho GTPase, homolog 1	618					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|pancreas(1)	2						TTACTTGCGACCCAAACGACA	0.642													17	102					0	0	0.004007	0	0	
NOTCH3	4854	broad.mit.edu	37	19	15290911	15290911	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:15290911C>T	uc002nan.2	-	20	3375	c.3299G>A	c.(3298-3300)CGT>CAT	p.R1100H	NOTCH3_uc002nao.1_Missense_Mutation_p.R1048H	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1100	Extracellular (Potential).|EGF-like 28.				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CATATAGCCACGGCAGGTCCC	0.642													9	59					0	0	0.008291	0	0	
MAST3	23031	broad.mit.edu	37	19	18252811	18252811	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:18252811G>A	uc002nhz.3	+	20	2238	c.2238G>A	c.(2236-2238)CTG>CTA	p.L746L		NM_015016	NP_055831	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase	746							ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5						GCCGCCGGCTGAGTGCTGACA	0.597													9	14					0	0	0.008291	0	0	
ISYNA1	51477	broad.mit.edu	37	19	18546466	18546466	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:18546466C>T	uc002njd.1	-	9	1211	c.1161G>A	c.(1159-1161)CCG>CCA	p.P387P	ISYNA1_uc002nja.1_Silent_p.P259P|ISYNA1_uc002njb.1_Silent_p.P305P|ISYNA1_uc002njc.1_Silent_p.P237P|ISYNA1_uc010xqh.1_Silent_p.P185P|ISYNA1_uc002nje.1_Silent_p.P333P|ISYNA1_uc002njf.1_Silent_p.P237P	NM_016368	NP_057452	Q9NPH2	INO1_HUMAN	inositol-3-phosphate synthase 1	387					inositol biosynthetic process|phospholipid biosynthetic process	cytoplasm	binding|inositol-3-phosphate synthase activity			ovary(1)|pancreas(1)	2						CACCCACGTACGGCACATACT	0.557													3	23					0	0	0.004672	0	0	
TSSK6	83983	broad.mit.edu	37	19	19626213	19626213	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:19626213G>A	uc002nmr.2	-	1	257	c.24C>T	c.(22-24)AGC>AGT	p.S8S	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	8					multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						AACCGAGTTCGCTCAGAAGTT	0.622													5	47					0	0	0.000602	0	0	
ATP13A1	57130	broad.mit.edu	37	19	19767528	19767528	+	Nonsense_Mutation	SNP	G	A	A	rs144897534		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:19767528G>A	uc002nnh.3	-	7	1052	c.1024C>T	c.(1024-1026)CGA>TGA	p.R342*	ATP13A1_uc002nnf.3_5'Flank|ATP13A1_uc002nng.2_Nonsense_Mutation_p.R224*	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	342	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						CAGCGGCCTCGCAGCAGAAGC	0.647													3	15					0	0	0.009096	0	0	
RHPN2	85415	broad.mit.edu	37	19	33512524	33512524	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:33512524G>C	uc002nuf.2	-	4	409	c.343C>G	c.(343-345)CTT>GTT	p.L115V	RHPN2_uc010xro.1_Intron|RHPN2_uc002nue.2_5'UTR	NM_033103	NP_149094	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	115	BRO1.				signal transduction	perinuclear region of cytoplasm	protein binding			central_nervous_system(5)|ovary(1)	6	Esophageal squamous(110;0.137)					TTCAGGCCAAGAGGAATCAGG	0.517													7	54					0	0	0.003080	0	0	
ZNF30	90075	broad.mit.edu	37	19	35422801	35422801	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:35422801G>T	uc010edp.1	+	3	442	c.64G>T	c.(64-66)GCC>TCC	p.A22S	ZNF30_uc002nxf.2_5'UTR|ZNF30_uc010edq.1_Missense_Mutation_p.A22S|ZNF30_uc010edr.1_Missense_Mutation_p.A22S	NM_194325	NP_919306	P17039	ZNF30_HUMAN	zinc finger protein 30 isoform b	22	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_lung(56;8.38e-08)|Lung NSC(56;1.31e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)	GBM - Glioblastoma multiforme(1328;0.0265)		TGTGGCCATAGCCTTCTCCCA	0.463													6	27					0.00116845	0.0012265	0.001168	1	0	
LGI4	163175	broad.mit.edu	37	19	35617783	35617783	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:35617783C>T	uc002nxx.2	-	7	1361	c.767G>A	c.(766-768)CGC>CAC	p.R256H	LGI4_uc002nxy.1_Missense_Mutation_p.R84H|LGI4_uc002nxz.1_Missense_Mutation_p.R84H	NM_139284	NP_644813	Q8N135	LGI4_HUMAN	leucine-rich repeat LGI family, member 4	256						extracellular region				pancreas(1)	1	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.54e-20)|OV - Ovarian serous cystadenocarcinoma(14;1.33e-18)|all cancers(14;4.27e-17)|LUSC - Lung squamous cell carcinoma(66;0.0849)			GGGCCGGAAGCGCTGCAGGCT	0.677													3	21					0	0	0.009096	0	0	
FFAR2	2867	broad.mit.edu	37	19	35941244	35941244	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:35941244C>G	uc002nzg.2	+	2	708	c.628C>G	c.(628-630)CCC>GCC	p.P210A	FFAR2_uc010eea.2_Missense_Mutation_p.P210A	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	210	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GCTCTCCCAGCCCCTTGTGGG	0.627													18	114					0	0	0.007413	0	0	
U2AF1L4	199746	broad.mit.edu	37	19	36234944	36234944	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:36234944G>A	uc002obg.2	-	5	466	c.157C>T	c.(157-159)CGG>TGG	p.R53W	TMEM149_uc002obb.2_5'Flank|TMEM149_uc002obc.2_5'Flank|TMEM149_uc002obd.3_5'Flank|TMEM149_uc010xsy.1_5'Flank|TMEM149_uc010eej.2_Intron|U2AF1L4_uc002obh.1_Intron|U2AF1L4_uc002obe.2_Missense_Mutation_p.R112W|U2AF1L4_uc002obf.2_Intron|PSENEN_uc002obi.1_5'Flank|PSENEN_uc002obj.1_5'Flank|PSENEN_uc002obk.1_5'Flank			Q8WU68	U2AF4_HUMAN	Homo sapiens cDNA FLJ35525 fis, clone SPLEN2001650.	151	C3H1-type 2.				mRNA processing|RNA splicing	nuclear speck|spliceosomal complex	nucleotide binding|RNA binding|zinc ion binding				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CATGACTCCCGGAAGTCAGTG	0.592													13	62					0	0	0.001855	0	0	
ARHGAP33	115703	broad.mit.edu	37	19	36271949	36271949	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:36271949G>T	uc002obr.1	+	11	1042	c.957G>T	c.(955-957)GAG>GAT	p.E319D	ARHGAP33_uc002obs.1_Missense_Mutation_p.E319D|ARHGAP33_uc002obt.1_Missense_Mutation_p.E183D|ARHGAP33_uc010eel.2_5'Flank|ARHGAP33_uc002obv.1_5'Flank	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	319	Rho-GAP.				cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						ATCTTGGCGAGCACCTCAGCA	0.697													4	45					0.00909568	0.00933882	0.009096	1	0	
PRODH2	58510	broad.mit.edu	37	19	36304127	36304127	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:36304127A>G	uc002obx.1	-	1	75	c.57T>C	c.(55-57)ATT>ATC	p.I19I		NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	19					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity			ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			tcacgtttgtaatcccaacac	0													7	25					0	0	0.001984	0	0	
NPHS1	4868	broad.mit.edu	37	19	36332672	36332672	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:36332672A>G	uc002oby.2	-	20	2760	c.2760T>C	c.(2758-2760)TGT>TGC	p.C920C	NPHS1_uc010eem.1_5'Flank	NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	920	Ig-like C2-type 8.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGGTGGCTGTACATGTGAAGA	0.587													10	32					0	0	0.008291	0	0	
ZNF790	388536	broad.mit.edu	37	19	37310520	37310520	+	Silent	SNP	A	G	G	rs34171890		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:37310520A>G	uc002oew.2	-	5	845	c.726T>C	c.(724-726)ACT>ACC	p.T242T	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	242	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TCTTATGACCAGTAAGACTCG	0.348													13	65					0	0	0.001855	0	0	
ZFP30	22835	broad.mit.edu	37	19	38134164	38134164	+	Splice_Site	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:38134164A>G	uc002ogv.1	-	5	751	c.235_splice	c.e5+1	p.D79_splice	ZFP30_uc002ogw.1_Splice_Site_p.D79_splice|ZFP30_uc002ogx.1_Splice_Site_p.D79_splice|ZFP30_uc010xtt.1_Splice_Site_p.D78_splice	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ATCAGCACTTACCTAGAGTCC	0.488													19	155					0	0	0.002780	0	0	
ZNF781	163115	broad.mit.edu	37	19	38160451	38160451	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:38160451A>C	uc002ogy.2	-	4	1341	c.599T>G	c.(598-600)CTT>CGT	p.L200R	ZNF781_uc002ogz.2_Missense_Mutation_p.L195R	NM_152605	NP_689818	Q8N8C0	ZN781_HUMAN	zinc finger protein 781	200					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GACATTCATAAGATTTCTCAT	0.358													21	67					0	0	0.001882	0	0	
SIPA1L3	23094	broad.mit.edu	37	19	38572964	38572964	+	Silent	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:38572964C>G	uc002ohk.2	+	3	1268	c.759C>G	c.(757-759)GGC>GGG	p.G253G		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	253					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TCATGGGGGGCGGCGGCGGAG	0.692													9	25					0	0	0.006214	0	0	
CATSPERG	57828	broad.mit.edu	37	19	38861356	38861356	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:38861356G>A	uc002oih.3	+	29	3491	c.3404G>A	c.(3403-3405)GGC>GAC	p.G1135D	CATSPERG_uc002oig.3_Missense_Mutation_p.G1095D|CATSPERG_uc002oif.3_Missense_Mutation_p.G775D|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	1135	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						TCCAGGATGGGCTCCATGTTC	0.557													16	90					0	0	0.003163	0	0	
FAM98C	147965	broad.mit.edu	37	19	38895639	38895639	+	Silent	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:38895639A>C	uc002oin.1	+	4	460	c.441A>C	c.(439-441)GTA>GTC	p.V147V	FAM98C_uc002oio.1_Silent_p.V147V|FAM98C_uc010xtz.1_Intron	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	147										skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GTGAAGGGGTAGTGGAGGGAG	0.647													44	103					0	0	0.002852	0	0	
SARS2	54938	broad.mit.edu	37	19	39412279	39412279	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:39412279C>T	uc002oka.2	-	4	582	c.422G>A	c.(421-423)CGT>CAT	p.R141H	SARS2_uc002ojz.2_Intron|SARS2_uc010xup.1_Intron|SARS2_uc002okb.2_Missense_Mutation_p.R141H|SARS2_uc010xuq.1_Missense_Mutation_p.R141H|SARS2_uc010xur.1_RNA|SARS2_uc010xus.1_3'UTR	NM_017827	NP_060297	Q9NP81	SYSM_HUMAN	seryl-tRNA synthetase 2 isoform b precursor	141					seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			CTCCCGGCCACGTGCCCGCAG	0.647													6	29					0	0	0.001168	0	0	
LTBP4	8425	broad.mit.edu	37	19	41114169	41114169	+	Nonsense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:41114169C>G	uc002ooh.1	+	11	1401	c.1401C>G	c.(1399-1401)TAC>TAG	p.Y467*	LTBP4_uc002oog.1_Nonsense_Mutation_p.Y430*|LTBP4_uc002ooi.1_Nonsense_Mutation_p.Y400*|LTBP4_uc002ooj.1_5'Flank|LTBP4_uc010xvo.1_5'Flank	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	467					growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GTTACCACTACTCGGCCTCCG	0.617													5	14					0	0	0.001168	0	0	
EXOSC5	56915	broad.mit.edu	37	19	41892595	41892595	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:41892595C>T	uc002oqo.2	-	6	674	c.651G>A	c.(649-651)TCG>TCA	p.S217S	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Intron	NM_020158	NP_064543	Q9NQT4	EXOS5_HUMAN	exosome component Rrp46	217					DNA deamination|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5'-exoribonuclease activity|protein binding|RNA binding				0						AGACGTGTTGCGAAGCGGCCT	0.657													5	3					0	0	0.001168	0	0	
ATP1A3	478	broad.mit.edu	37	19	42486220	42486220	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:42486220C>A	uc002osg.2	-	9	1186	c.1032G>T	c.(1030-1032)AAG>AAT	p.K344N	ATP1A3_uc010xwf.1_Missense_Mutation_p.K355N|ATP1A3_uc010xwg.1_Missense_Mutation_p.K314N|ATP1A3_uc010xwh.1_Missense_Mutation_p.K357N|ATP1A3_uc002osh.2_Missense_Mutation_p.K344N	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	344	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						ccaggcagttcttccGGGCCA	0.473													14	82					2.32078e-09	2.61475e-09	0.003163	1	0	
PSG8	440533	broad.mit.edu	37	19	43258708	43258708	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:43258708T>C	uc002ouo.2	-	5	1118	c.1020A>G	c.(1018-1020)TCA>TCG	p.S340S	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc010eim.2_RNA|PSG8_uc002oui.2_Silent_p.S179S|PSG8_uc002ouh.2_Silent_p.S340S|PSG8_uc010ein.2_Silent_p.S218S|PSG8_uc002ouj.3_Silent_p.S122S|PSG8_uc002ouk.3_Silent_p.S179S|PSG8_uc002oul.3_Silent_p.S340S|PSG8_uc002oum.3_Silent_p.S247S|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Silent_p.S247S	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	340	Ig-like C2-type 3.					extracellular region					0		Prostate(69;0.00899)				AATAGGTGAATGAAGGGTAAA	0.478													33	114					0	0	0.009535	0	0	
PLAUR	5329	broad.mit.edu	37	19	44174241	44174241	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:44174241A>G	uc002oxf.1	-	1	262	c.32T>C	c.(31-33)CTG>CCG	p.L11P	PLAUR_uc002oxd.1_Missense_Mutation_p.L11P|PLAUR_uc002oxe.1_5'Flank|PLAUR_uc002oxg.1_Missense_Mutation_p.L11P	NM_002659	NP_002650	Q03405	UPAR_HUMAN	plasminogen activator, urokinase receptor	11					attachment of GPI anchor to protein|blood coagulation|C-terminal protein lipidation|cellular component movement|chemotaxis|fibrinolysis|regulation of proteolysis	anchored to membrane|cell surface|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|extrinsic to membrane|integral to membrane|plasma membrane	enzyme binding|U-plasminogen activator receptor activity			ovary(1)	1		Prostate(69;0.0153)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Streptokinase(DB00086)|Tenecteplase(DB00031)|Urokinase(DB00013)	GTGGagcagcagcagcagcgg	0.562													25	65					0	0	0.003330	0	0	
CLPTM1	1209	broad.mit.edu	37	19	45476381	45476381	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:45476381C>T	uc002pai.2	+	3	238	c.223C>T	c.(223-225)CGA>TGA	p.R75*	CLPTM1_uc010ejv.1_5'UTR|CLPTM1_uc010xxf.1_5'UTR|CLPTM1_uc010xxg.1_Nonsense_Mutation_p.R61*	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	75	Extracellular (Potential).				cell differentiation|multicellular organismal development|regulation of T cell differentiation in thymus	external side of plasma membrane|integral to plasma membrane				ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00354)|Epithelial(262;0.187)		TTGGTTCCGCCGAGGGCCGGC	0.637													10	49					0	0	0.006214	0	0	
PPP1R13L	10848	broad.mit.edu	37	19	45885799	45885799	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:45885799G>A	uc002pbn.2	-	12	2511	c.2434C>T	c.(2434-2436)CGG>TGG	p.R812W	PPP1R13L_uc002pbm.2_Missense_Mutation_p.R391W|PPP1R13L_uc002pbo.2_Missense_Mutation_p.R812W	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	812	SH3.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		AAGTAGTTCCGCGGCACGTAG	0.672													10	59					0	0	0.006214	0	0	
SIX5	147912	broad.mit.edu	37	19	46269299	46269299	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:46269299C>G	uc002pdb.2	-	3	2075	c.1680G>C	c.(1678-1680)AAG>AAC	p.K560N	SIX5_uc002pdc.2_Missense_Mutation_p.D292H	NM_175875	NP_787071	Q8N196	SIX5_HUMAN	SIX homeobox 5	560						cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00783)|GBM - Glioblastoma multiforme(486;0.0802)|Epithelial(262;0.235)		TGAGGATGATCTTGCCCTGCT	0.672													5	9					0	0	0.000602	0	0	
HIF3A	64344	broad.mit.edu	37	19	46815865	46815865	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:46815865G>A	uc002peh.2	+	8	1009	c.980G>A	c.(979-981)CGG>CAG	p.R327Q	HIF3A_uc002pef.1_3'UTR|HIF3A_uc002peg.3_Missense_Mutation_p.R327Q|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Missense_Mutation_p.R271Q|HIF3A_uc002pej.1_Missense_Mutation_p.R258Q|HIF3A_uc002pek.2_Missense_Mutation_p.R271Q|HIF3A_uc010xxy.1_Missense_Mutation_p.R258Q|HIF3A_uc002pel.2_Missense_Mutation_p.R325Q|HIF3A_uc010xxz.1_Missense_Mutation_p.R276Q	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	327					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		TCAGGGGGACGGGGCCCCCAG	0.617													12	63					0	0	0.000978	0	0	
PRKD2	25865	broad.mit.edu	37	19	47207644	47207644	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:47207644C>T	uc002pfh.2	-	6	1013	c.671G>A	c.(670-672)CGT>CAT	p.R224H	PRKD2_uc002pfg.2_Missense_Mutation_p.R67H|PRKD2_uc002pfi.2_Missense_Mutation_p.R224H|PRKD2_uc002pfj.2_Missense_Mutation_p.R224H|PRKD2_uc010xye.1_Missense_Mutation_p.R224H|PRKD2_uc002pfk.2_Missense_Mutation_p.R67H	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	224					cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		GGTGGTGCTACGGCTCTGTCG	0.627											OREG0025578	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	79					0	0	0.010504	0	0	
NPAS1	4861	broad.mit.edu	37	19	47524418	47524418	+	Silent	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:47524418C>A	uc002pfw.2	+	2	310	c.114C>A	c.(112-114)TCC>TCA	p.S38S	NPAS1_uc002pfx.2_Intron|NPAS1_uc002pfy.2_Silent_p.S38S	NM_002517	NP_002508	Q99742	NPAS1_HUMAN	neuronal PAS domain protein 1	38					central nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0		all_cancers(25;4.31e-08)|all_epithelial(76;2.96e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.102)		all cancers(93;6.02e-05)|OV - Ovarian serous cystadenocarcinoma(262;7.35e-05)|Epithelial(262;0.00389)|GBM - Glioblastoma multiforme(486;0.0252)		AGGCGCCGTCCGGACCGTGGT	0.542													4	4					0.00024832	0.000263275	0.009096	1	0	
TBC1D17	79735	broad.mit.edu	37	19	50383626	50383626	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:50383626C>T	uc002pqo.2	+	4	438	c.286C>T	c.(286-288)CGG>TGG	p.R96W	AKT1S1_uc002pqm.3_5'Flank|TBC1D17_uc010enn.1_RNA|TBC1D17_uc010ybg.1_Missense_Mutation_p.R63W|TBC1D17_uc002pqp.2_5'UTR|TBC1D17_uc002pqq.1_RNA|TBC1D17_uc002pqr.2_5'UTR|TBC1D17_uc002pqs.2_5'Flank	NM_024682	NP_078958	Q9HA65	TBC17_HUMAN	TBC1 domain family, member 17	96						intracellular	Rab GTPase activator activity				0		all_lung(116;0.000338)|Lung NSC(112;0.000446)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.017)		CAGCACTGTGCGGCCACAGCT	0.597													9	23					0	0	0.004482	0	0	
SIGLEC9	27180	broad.mit.edu	37	19	51629040	51629040	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:51629040A>C	uc002pvu.2	+	2	675	c.608A>C	c.(607-609)CAG>CCG	p.Q203P	SIGLEC9_uc010yct.1_Missense_Mutation_p.Q203P	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	203	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		CTCATCCCACAGCCCCAGGAC	0.642													19	55					0	0	0.006122	0	0	
NLRP12	91662	broad.mit.edu	37	19	54327332	54327332	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:54327332C>A	uc002qch.3	-	1	317	c.97G>T	c.(97-99)GGG>TGG	p.G33W	NLRP12_uc002qci.3_Missense_Mutation_p.G33W|NLRP12_uc002qcj.3_Missense_Mutation_p.G33W|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.G33W	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	33	DAPIN.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		GTCGCGGTCCCCAGGTATAAC	0.607													10	44					4.68919e-08	5.22739e-08	0.008291	1	0	
MYADM	91663	broad.mit.edu	37	19	54377623	54377623	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:54377623C>T	uc002qcl.2	+	3	988	c.840C>T	c.(838-840)AGC>AGT	p.S280S	MYADM_uc002qcm.2_Silent_p.S280S|MYADM_uc002qcn.2_Silent_p.S280S|MYADM_uc002qco.2_Silent_p.S280S|MYADM_uc002qcp.2_Silent_p.S280S	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	280	MARVEL 2.					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		TAAGCTGCAGCCGCAGCCATG	0.617													13	44					0	0	0.001368	0	0	
LENG8	114823	broad.mit.edu	37	19	54966670	54966670	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:54966670C>A	uc002qfv.1	+	7	982	c.838C>A	c.(838-840)CTC>ATC	p.L280I	LENG8_uc002qfw.2_Missense_Mutation_p.L317I			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	280							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		GGAAAAGCTGCTCAAGGAGGT	0.632													6	28					3.59834e-05	3.86844e-05	0.001168	1	0	
NLRP7	199713	broad.mit.edu	37	19	55451393	55451393	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:55451393A>G	uc002qih.3	-	4	870	c.794T>C	c.(793-795)CTG>CCG	p.L265P	NLRP7_uc002qig.3_Missense_Mutation_p.L265P|NLRP7_uc002qii.3_Missense_Mutation_p.L265P|NLRP7_uc010esk.2_Missense_Mutation_p.L265P|NLRP7_uc010esl.2_Missense_Mutation_p.L293P	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	265	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		GTCCTGGATCAGCGCCCCAGG	0.572													14	78					0	0	0.003163	0	0	
NLRP13	126204	broad.mit.edu	37	19	56423312	56423312	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:56423312C>G	uc010ygg.1	-	5	1896	c.1871G>C	c.(1870-1872)GGT>GCT	p.G624A		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	624							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		TTCAGCCTTACCTAACTCTTC	0.403													12	72					0	0	0.000978	0	0	
ZNF582	147948	broad.mit.edu	37	19	56896485	56896485	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:56896485G>T	uc002qmz.1	-	5	460	c.301C>A	c.(301-303)CAA>AAA	p.Q101K	ZNF582_uc002qmy.2_Missense_Mutation_p.Q132K	NM_144690	NP_653291	Q96NG8	ZN582_HUMAN	zinc finger protein 582	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|large_intestine(1)	4		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0547)		ATCTCCCATTGGGGTGATTCG	0.383													20	75					3.51602e-12	4.06434e-12	0.008871	1	0	
PEG3	5178	broad.mit.edu	37	19	57328104	57328104	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:57328104T>G	uc002qnu.2	-	7	2057	c.1706A>C	c.(1705-1707)AAG>ACG	p.K569T	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.K540T|PEG3_uc002qnv.2_Missense_Mutation_p.K569T|PEG3_uc002qnw.2_Missense_Mutation_p.K445T|PEG3_uc002qnx.2_Missense_Mutation_p.K443T|PEG3_uc010etr.2_Missense_Mutation_p.K569T	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	569	C2H2-type 3.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GAAGGTTTCCTTACACACCCT	0.368													16	82					0	0	0.004007	0	0	
ZNF304	57343	broad.mit.edu	37	19	57867521	57867521	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:57867521A>G	uc010ygw.1	+	3	672	c.284A>G	c.(283-285)GAC>GGC	p.D95G	ZNF304_uc010etw.2_Missense_Mutation_p.D142G|ZNF304_uc010etx.2_Missense_Mutation_p.D53G	NM_020657	NP_065708	Q9HCX3	ZN304_HUMAN	zinc finger protein 304	95	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0265)		GAGATGTGTGACCCACTCTTG	0.507													9	52					0	0	0.008291	0	0	
ZNF329	79673	broad.mit.edu	37	19	58640743	58640743	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:58640743T>A	uc002qrn.2	-	4	365	c.128A>T	c.(127-129)CAG>CTG	p.Q43L	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	43					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		GTGTCCCTCCTGGTTCTCACA	0.468													24	128					0	0	0.002780	0	0	
COLEC11	78989	broad.mit.edu	37	2	3691583	3691583	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:3691583G>A	uc002qya.2	+	7	839	c.691G>A	c.(691-693)GGT>AGT	p.G231S	COLEC11_uc002qxz.2_Missense_Mutation_p.G228S|COLEC11_uc002qyb.2_Missense_Mutation_p.G207S|COLEC11_uc002qyc.2_Missense_Mutation_p.G207S|COLEC11_uc010ewo.2_Missense_Mutation_p.G183S|COLEC11_uc010ewp.2_Missense_Mutation_p.G205S|COLEC11_uc010ewq.2_Missense_Mutation_p.G181S|COLEC11_uc010ewr.2_Missense_Mutation_p.G181S|COLEC11_uc010ews.2_Missense_Mutation_p.G157S	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	231	C-type lectin.					collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		GTGGCGCAGCGGTGAGCCCAA	0.622													5	65					0	0	0.000602	0	0	
ADAM17	6868	broad.mit.edu	37	2	9666322	9666322	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:9666322G>A	uc002qzu.2	-	6	854	c.671C>T	c.(670-672)ACG>ATG	p.T224M	ADAM17_uc010ewy.2_Missense_Mutation_p.T224M|ADAM17_uc010ewz.2_Intron|ADAM17_uc010exa.2_5'Flank|ADAM17_uc010exb.1_3'UTR	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	224	Peptidase M12B.|Extracellular (Potential).				B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)		TAATTTACACGTGTTCTTCAT	0.373													23	91					0	0	0.003954	0	0	
NCOA1	8648	broad.mit.edu	37	2	24928069	24928069	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:24928069A>C	uc002rfk.2	+	10	1322	c.1064A>C	c.(1063-1065)CAA>CCA	p.Q355P	NCOA1_uc010eye.2_Missense_Mutation_p.Q355P|NCOA1_uc002rfi.2_Missense_Mutation_p.Q204P|NCOA1_uc002rfj.2_Missense_Mutation_p.Q355P|NCOA1_uc002rfl.2_Missense_Mutation_p.Q355P	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	355									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCAGACATGCAACCTTTCATC	0.403			T	PAX3	alveolar rhadomyosarcoma								18	82					0	0	0.008871	0	0	
CIB4	130106	broad.mit.edu	37	2	26864136	26864136	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:26864136T>A	uc002rhm.2	-	1	76	c.47A>T	c.(46-48)GAG>GTG	p.E16V		NM_001029881	NP_001025052	A0PJX0	CIB4_HUMAN	calcium and integrin binding family member 4	16							calcium ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACCTGGTACTCTTCCAGGTC	0.542													28	120					0	0	0.009535	0	0	
CDKL4	344387	broad.mit.edu	37	2	39411785	39411785	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:39411785T>C	uc002rrm.2	-	7	739	c.739A>G	c.(739-741)ACT>GCT	p.T247A	CDKL4_uc010fal.1_Missense_Mutation_p.T247A	NM_001009565	NP_001009565	Q5MAI5	CDKL4_HUMAN	cyclin-dependent kinase-like 4	247	Protein kinase.					cytoplasm	ATP binding|cyclin-dependent protein kinase activity			ovary(1)	1		all_hematologic(82;0.248)				TCCTCAAGAGTTTCCTGAAAA	0.224													4	24					0	0	0.009096	0	0	
TSPYL6	388951	broad.mit.edu	37	2	54483113	54483113	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:54483113A>G	uc002rxr.2	-	1	297	c.176T>C	c.(175-177)GTC>GCC	p.V59A	ACYP2_uc002rxq.3_Intron	NM_001003937	NP_001003937	Q8N831	TSYL6_HUMAN	TSPY-like 6	59					nucleosome assembly	nucleus					0						CTGGGGCGCGACCCCCTCCTC	0.597													13	60					0	0	0.001368	0	0	
ANKRD53	79998	broad.mit.edu	37	2	71209753	71209753	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:71209753C>T	uc002shl.3	+	5	1030	c.829C>T	c.(829-831)CGT>TGT	p.R277C	ANKRD53_uc002shk.3_Missense_Mutation_p.R277C|ANKRD53_uc002shm.3_Missense_Mutation_p.R188C	NM_001115116	NP_001108588	Q8N9V6	ANR53_HUMAN	ankyrin repeat domain 53 isoform a	277											0						GGACTTTGCCCGTGAGATGAC	0.537													14	54					0	0	0.001855	0	0	
DQX1	165545	broad.mit.edu	37	2	74746867	74746867	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:74746867G>C	uc010yrw.1	-	10	1787	c.1622C>G	c.(1621-1623)GCA>GGA	p.A541G	DQX1_uc002smc.2_Missense_Mutation_p.A102G	NM_133637	NP_598376	Q8TE96	DQX1_HUMAN	DEAQ box polypeptide 1 (RNA-dependent ATPase)	541						nucleus	ATP binding|helicase activity|nucleic acid binding			ovary(2)	2						AGCCTCATCTGCTCCACCTAG	0.507													12	52					0	0	0.000978	0	0	
LRRTM4	80059	broad.mit.edu	37	2	77746530	77746530	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:77746530G>A	uc002snr.2	-	3	880	c.465C>T	c.(463-465)GGC>GGT	p.G155G	LRRTM4_uc002snq.2_Silent_p.G155G|LRRTM4_uc002sns.2_Silent_p.G155G|LRRTM4_uc002snt.2_Silent_p.G156G	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	155	LRR 4.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GTTTCCGAAGGCCTTTAAATT	0.393													10	46					0	0	0.006214	0	0	
REG1B	5968	broad.mit.edu	37	2	79312400	79312400	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:79312400T>G	uc002sny.2	-	6	555	c.443A>C	c.(442-444)AAA>ACA	p.K148T		NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	148	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						ATCCTTCCATTTCTTGAATCC	0.403													7	28					0	0	0.001984	0	0	
POLR1A	25885	broad.mit.edu	37	2	86315779	86315779	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:86315779C>T	uc002sqs.2	-	6	1019	c.640G>A	c.(640-642)GTT>ATT	p.V214I	POLR1A_uc002sqv.2_Missense_Mutation_p.V214I	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	214					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						TTTCGGACAACGGATCGCCCG	0.512													11	41					0	0	0.001368	0	0	
NEURL3	93082	broad.mit.edu	37	2	97166255	97166255	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:97166255C>T	uc010yuo.1	-	2	506	c.435G>A	c.(433-435)CTG>CTA	p.L145L	NEURL3_uc010fhx.2_RNA|NEURL3_uc002swc.2_RNA|NEURL3_uc010yup.1_Silent_p.L145L					SubName: Full=cDNA FLJ54814;												0						CGCCCTCACGCAGCAGGAGCC	0.706													3	4					0	0	0.004672	0	0	
SLC9A2	6549	broad.mit.edu	37	2	103281692	103281692	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:103281692C>T	uc002tca.2	+	3	1029	c.887C>T	c.(886-888)GCG>GTG	p.A296V		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	296	Helical; Name=H/M6; (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						GGCTTTATAGCGGCATTTACT	0.433													8	115					0	0	0.003080	0	0	
PSD4	23550	broad.mit.edu	37	2	113953852	113953852	+	Missense_Mutation	SNP	G	A	A	rs139776921	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:113953852G>A	uc002tjc.2	+	12	2537	c.2354G>A	c.(2353-2355)CGG>CAG	p.R785Q	PSD4_uc002tjd.2_Missense_Mutation_p.R406Q|PSD4_uc002tje.2_Missense_Mutation_p.R756Q|PSD4_uc002tjf.2_Missense_Mutation_p.R406Q|PSD4_uc002tjg.2_5'Flank|PSD4_uc010yxs.1_5'Flank|PSD4_uc002tjh.2_5'Flank	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	785	PH.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						ATCCTGGCTCGGAAAATGCAT	0.607													7	26					0	0	0.001984	0	0	
DDX11L2	84771	broad.mit.edu	37	2	114357557	114357557	+	Nonstop_Mutation	SNP	A	G	G	rs115341812	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:114357557A>G	uc010yxx.1	-	3	709	c.382T>C	c.(382-384)TAG>CAG	p.*128Q						SubName: Full=DEAD/H box polypeptide 11 like 2;												0						GCCTACTTCTAGTGAAACTGG	0.567													3	20					0	0	0.004672	0	0	
RAB6C	84084	broad.mit.edu	37	2	130738406	130738406	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:130738406T>C	uc002tpx.1	+	1	1172	c.718T>C	c.(718-720)TTA>CTA	p.L240L	uc002tpw.1_5'Flank	NM_032144	NP_115520	Q9H0N0	RAB6C_HUMAN	RAB6C, member RAS oncogene family	240					protein transport|response to drug|small GTPase mediated signal transduction		GTP binding|GTPase activity			lung(1)	1	Colorectal(110;0.1)					TTTCCCTTCATTAATAACGTT	0.403													12	73					0	0	0.008871	0	0	
THSD7B	80731	broad.mit.edu	37	2	137872832	137872832	+	Silent	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:137872832A>T	uc002tva.1	+	4	1245	c.1245A>T	c.(1243-1245)GTA>GTT	p.V415V	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Silent_p.V305V	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CCCAGAGCGTACCAGCAGCTG	0.612													4	21					0	0	0.009096	0	0	
LRP1B	53353	broad.mit.edu	37	2	141260572	141260572	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:141260572A>T	uc002tvj.1	-	54	9594	c.8622T>A	c.(8620-8622)CAT>CAA	p.H2874Q		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2874	Extracellular (Potential).|LDL-receptor class A 19.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CTTCATCAGAATGGTCAGGAC	0.388										TSP Lung(27;0.18)			14	78					0	0	0.002450	0	0	
ZEB2	9839	broad.mit.edu	37	2	145156151	145156152	+	Missense_Mutation	DNP	TC	AA	AA			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:145156151_145156152TC>AA	uc002tvu.2	-	8	3082_3083	c.2602_2603GA>TT	c.(2602-2604)GAA>TTA	p.E868L	ZEB2_uc002tvv.2_Missense_Mutation_p.E862L|ZEB2_uc010zbm.1_Missense_Mutation_p.E839L|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.E897L	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	868						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ATTTGAAAATTCCTTCTTGATA	0.371													15	73					0	0	0.004672	0	0	
MBD5	55777	broad.mit.edu	37	2	149240713	149240713	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:149240713G>A	uc002twm.3	+	10	3541	c.2553G>A	c.(2551-2553)GCG>GCA	p.A851A	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Silent_p.A851A|MBD5_uc002two.2_5'Flank|MBD5_uc002twp.2_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	851						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		TAGCCATAGCGGGCACCAACC	0.453													15	109					0	0	0.002450	0	0	
RIF1	55183	broad.mit.edu	37	2	152293810	152293810	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:152293810T>C	uc002txm.2	+	13	1558	c.1428T>C	c.(1426-1428)AAT>AAC	p.N476N	RIF1_uc002txl.2_Silent_p.N476N|RIF1_uc010fnv.1_Silent_p.N440N|RIF1_uc002txn.2_Silent_p.N476N|RIF1_uc002txo.2_Silent_p.N476N|RIF1_uc010zby.1_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	476					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		AACATGCAAATACACTTATCA	0.343													15	91					0	0	0.003163	0	0	
GPD2	2820	broad.mit.edu	37	2	157370007	157370007	+	Silent	SNP	C	T	T	rs115712695	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:157370007C>T	uc002tzf.3	+	6	1020	c.660C>T	c.(658-660)GAC>GAT	p.D220D	GPD2_uc010zch.1_Intron|GPD2_uc002tzd.3_Silent_p.D220D|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	220					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						TCTACTATGACGGTATGTGAT	0.368													10	57					0	0	0.006214	0	0	
COBLL1	22837	broad.mit.edu	37	2	165548759	165548759	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:165548759G>A	uc010zcw.1	-	16	3711	c.3587C>T	c.(3586-3588)TCG>TTG	p.S1196L	COBLL1_uc002ucp.2_Missense_Mutation_p.S1129L|COBLL1_uc002ucq.2_Missense_Mutation_p.S1091L|COBLL1_uc010zcx.1_Missense_Mutation_p.S1137L|COBLL1_uc002ucn.2_Missense_Mutation_p.S557L|COBLL1_uc002uco.2_Missense_Mutation_p.S860L	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	1167	WH2.									ovary(2)|pancreas(1)	3						AGCCTCTCCCGAACGGATTGC	0.428													8	40					0	0	0.003080	0	0	
TTC21B	79809	broad.mit.edu	37	2	166767931	166767931	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:166767931A>G	uc002udk.2	-	18	2500	c.2367T>C	c.(2365-2367)AAT>AAC	p.N789N		NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	789	TPR 10.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						AGCAAAGATAATTCTTTTGTC	0.378													10	73					0	0	0.008291	0	0	
XIRP2	129446	broad.mit.edu	37	2	168104263	168104263	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:168104263G>A	uc002udx.2	+	8	6379	c.6361G>A	c.(6361-6363)GTT>ATT	p.V2121I	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.V1946I|XIRP2_uc010fpq.2_Missense_Mutation_p.V1899I|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1946					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TGGTAAAACCGTTGGAAAGCA	0.353													10	58					0	0	0.008291	0	0	
ABCB11	8647	broad.mit.edu	37	2	169826018	169826018	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:169826018G>A	uc002ueo.1	-	16	1979	c.1853C>T	c.(1852-1854)TCT>TTT	p.S618F	ABCB11_uc010zda.1_Missense_Mutation_p.S60F|ABCB11_uc010zdb.1_Missense_Mutation_p.S94F	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	618	Cytoplasmic (Potential).|ABC transporter 1.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	TCTGACCGTAGACAAGCGATG	0.443													3	25					0	0	0.004672	0	0	
LRP2	4036	broad.mit.edu	37	2	170083054	170083054	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:170083054C>G	uc002ues.2	-	32	5485	c.5272G>C	c.(5272-5274)GGA>CGA	p.G1758R		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1758	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AGGGAGATTCCAAAAATTATA	0.358													6	55					0	0	0.001168	0	0	
TTN	7273	broad.mit.edu	37	2	179411492	179411492	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179411492G>A	uc010zfg.1	-	290	87183	c.86959C>T	c.(86959-86961)CGC>TGC	p.R28987C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R22682C|TTN_uc010zfi.1_Missense_Mutation_p.R22615C|TTN_uc010zfj.1_Missense_Mutation_p.R22490C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29914							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCAGCCAGCGACCATCTCCT	0.488													7	50					0	0	0.004482	0	0	
TTN	7273	broad.mit.edu	37	2	179415859	179415859	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179415859G>A	uc010zfg.1	-	285	83919	c.83695C>T	c.(83695-83697)CGC>TGC	p.R27899C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R21594C|TTN_uc010zfi.1_Missense_Mutation_p.R21527C|TTN_uc010zfj.1_Missense_Mutation_p.R21402C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28826							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.R21402C(1)|p.R27897C(1)		ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTCACCCAGCGTTCATTTCCT	0.463													7	28					0	0	0.001984	0	0	
TTN	7273	broad.mit.edu	37	2	179440722	179440722	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179440722G>A	uc010zfg.1	-	275	62657	c.62433C>T	c.(62431-62433)ACC>ACT	p.T20811T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.T14506T|TTN_uc010zfi.1_Silent_p.T14439T|TTN_uc010zfj.1_Silent_p.T14314T|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21738							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTTATCTTTGGTCCATGTCA	0.398													22	115					0	0	0.003330	0	0	
TTN	7273	broad.mit.edu	37	2	179454276	179454276	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179454276T>A	uc010zfg.1	-	253	54696	c.54472A>T	c.(54472-54474)ACT>TCT	p.T18158S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T11853S|TTN_uc010zfi.1_Missense_Mutation_p.T11786S|TTN_uc010zfj.1_Missense_Mutation_p.T11661S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19085							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGTAGTGAGTTTCTTTAATG	0.428													19	60					0	0	0.006122	0	0	
TTN	7273	broad.mit.edu	37	2	179481230	179481230	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179481230T>G	uc010zfg.1	-	206	40808	c.40584A>C	c.(40582-40584)GAA>GAC	p.E13528D	TTN_uc010zfh.1_Missense_Mutation_p.E7223D|TTN_uc010zfi.1_Missense_Mutation_p.E7156D|TTN_uc010zfj.1_Missense_Mutation_p.E7031D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14455							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCGGCTGACTTCTCGTTTTT	0.433													21	120					0	0	0.008871	0	0	
TTN	7273	broad.mit.edu	37	2	179592042	179592042	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179592042A>G	uc010zfg.1	-	66	16542	c.16318T>C	c.(16318-16320)TCT>CCT	p.S5440P	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S2101P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6367							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGTCGTGAAGAGTCACCTGCT	0.408													7	24					0	0	0.003080	0	0	
TTN	7273	broad.mit.edu	37	2	179596518	179596518	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:179596518T>C	uc010zfg.1	-	55	13576	c.13352A>G	c.(13351-13353)CAG>CGG	p.Q4451R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Q1112R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5378							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTGAGGATCTGCAGGCTAAC	0.488													21	87					0	0	0.010504	0	0	
ZNF804A	91752	broad.mit.edu	37	2	185800571	185800571	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:185800571G>T	uc002uph.2	+	4	1042	c.448G>T	c.(448-450)GAA>TAA	p.E150*		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	150						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						AAACTGTAATGAAATTTCCCA	0.373													13	52					9.31168e-06	1.01266e-05	0.001855	1	0	
ANKAR	150709	broad.mit.edu	37	2	190602494	190602494	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:190602494T>C	uc002uqw.1	+	17	3296	c.3296T>C	c.(3295-3297)ATA>ACA	p.I1099T	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqx.1_RNA|ANKAR_uc002uqy.1_Missense_Mutation_p.I266T	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	1170						integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			GAAAGTGGAATAATGACCATA	0.323													7	30					0	0	0.001984	0	0	
HECW2	57520	broad.mit.edu	37	2	197157452	197157452	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:197157452T>C	uc002utm.1	-	14	3020	c.2837A>G	c.(2836-2838)AAC>AGC	p.N946S	HECW2_uc002utl.1_Missense_Mutation_p.N590S	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	946	Interaction with TP73.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						ACACGTGTTGTTTGTAAACAT	0.468													5	23					0	0	0.001168	0	0	
MAP2	4133	broad.mit.edu	37	2	210559927	210559927	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:210559927C>T	uc002vde.1	+	7	3281	c.3033C>T	c.(3031-3033)TCC>TCT	p.S1011S	MAP2_uc002vdc.1_Silent_p.S1011S|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.S1007S	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1011					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CAGATGCATCCTCTGAGAAAG	0.443													16	65					0	0	0.004007	0	0	
BARD1	580	broad.mit.edu	37	2	215593476	215593476	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:215593476C>T	uc002veu.2	-	11	2393	c.2258G>A	c.(2257-2259)GGC>GAC	p.G753D	BARD1_uc010zjm.1_3'UTR	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	753	BRCT 2.				cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CCAGACTTTGCCCTGCCGAAC	0.453									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				5	36					0	0	0.001168	0	0	
ABCA12	26154	broad.mit.edu	37	2	215896544	215896544	+	Splice_Site	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:215896544C>G	uc002vew.2	-	9	1281	c.1061_splice	c.e9+1	p.Q354_splice	ABCA12_uc002vev.2_Intron|ABCA12_uc010zjn.1_Splice_Site	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12						cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CAAAGACTTACTGTGCAGCCA	0.343													14	68					0	0	0.002450	0	0	
C2orf62	375307	broad.mit.edu	37	2	219222808	219222808	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:219222808T>C	uc002vhr.2	+	4	397	c.368T>C	c.(367-369)TTC>TCC	p.F123S	C2orf62_uc002vhs.2_RNA	NM_198559	NP_940961	Q7Z7H3	CB062_HUMAN	hypothetical protein LOC375307	123											0		Renal(207;0.0915)		Epithelial(149;8.08e-07)|all cancers(144;0.000146)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGCCAAGACTTCATCAAGGTA	0.512													9	53					0	0	0.008291	0	0	
PLCD4	84812	broad.mit.edu	37	2	219480484	219480484	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:219480484C>T	uc002vij.1	+	2	217	c.22C>T	c.(22-24)CAG>TAG	p.Q8*	PLCD4_uc010zkj.1_Missense_Mutation_p.L8F	NM_032726	NP_116115	Q9BRC7	PLCD4_HUMAN	phospholipase C, delta 4	8					intracellular signal transduction|lipid catabolic process	endoplasmic reticulum|membrane|nucleus	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)	3		Renal(207;0.0915)		Epithelial(149;5.11e-07)|all cancers(144;0.000104)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GCTGCAAGACCGTGAGTGCCG	0.597													7	33					0	0	0.003080	0	0	
TMEM198	130612	broad.mit.edu	37	2	220412635	220412635	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:220412635G>A	uc002vme.2	+	4	1159	c.574G>A	c.(574-576)GCC>ACC	p.A192T	TMEM198_uc002vmf.2_Missense_Mutation_p.A192T	NM_001005209	NP_001005209	Q66K66	TM198_HUMAN	transmembrane protein 198	192	Helical; (Potential).|Leu-rich.					integral to membrane				ovary(1)	1		Renal(207;0.0376)		Epithelial(149;6.49e-08)|all cancers(144;6.45e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		TGACTACTTCGCCGAGCTGCT	0.701													3	10					0	0	0.004672	0	0	
PAX3	5077	broad.mit.edu	37	2	223086046	223086046	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:223086046C>T	uc010fwo.2	-	6	1219	c.853G>A	c.(853-855)GCT>ACT	p.A285T	PAX3_uc002vmt.1_Missense_Mutation_p.A285T|PAX3_uc002vmy.1_Missense_Mutation_p.A284T|PAX3_uc002vmv.1_Missense_Mutation_p.A285T|PAX3_uc002vmw.1_Missense_Mutation_p.A285T|PAX3_uc002vmx.1_Missense_Mutation_p.A285T	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	285					apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGGTTGAAAGCCATCAGTTGA	0.502			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						30	130					0	0	0.009535	0	0	
SGPP2	130367	broad.mit.edu	37	2	223339343	223339343	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:223339343T>G	uc010zlo.1	+	2	276	c.276T>G	c.(274-276)TTT>TTG	p.F92L	SGPP2_uc010zlp.1_5'UTR	NM_152386	NP_689599	Q8IWX5	SGPP2_HUMAN	sphingosine-1-phosphate phosphotase 2	92	Helical; (Potential).				sphingosine metabolic process	endoplasmic reticulum membrane|integral to membrane	dihydrosphingosine-1-phosphate phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)|skin(1)	2		Renal(207;0.0376)		Epithelial(121;2.08e-09)|all cancers(144;9.25e-07)|LUSC - Lung squamous cell carcinoma(224;0.011)|Lung(261;0.0143)		TATTCCAATTTTCAGCTGCTT	0.368													17	85					0	0	0.004990	0	0	
COL6A3	1293	broad.mit.edu	37	2	238280823	238280823	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr2:238280823G>C	uc002vwl.2	-	9	4122	c.3837C>G	c.(3835-3837)GAC>GAG	p.D1279E	COL6A3_uc002vwo.2_Missense_Mutation_p.D1073E|COL6A3_uc010znj.1_Missense_Mutation_p.D672E|COL6A3_uc002vwq.2_Missense_Mutation_p.D1073E|COL6A3_uc002vwr.2_Missense_Mutation_p.D872E	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1279	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CCACCTTGGGGTCATCGCTGA	0.602													10	17					0	0	0.006214	0	0	
SLC4A11	83959	broad.mit.edu	37	20	3209270	3209270	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:3209270G>A	uc002wig.2	-	17	2372	c.2324C>T	c.(2323-2325)CCG>CTG	p.P775L	SLC4A11_uc010zqe.1_Missense_Mutation_p.P802L|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.P759L	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	775	Membrane (bicarbonate transporter).|Helical; (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						CCACTGAAGCGGGACCGGCAG	0.672													7	51					0	0	0.001984	0	0	
SEC23B	10483	broad.mit.edu	37	20	18511371	18511371	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:18511371A>G	uc002wqz.1	+	10	1600	c.1157A>G	c.(1156-1158)CAG>CGG	p.Q386R	SEC23B_uc002wra.1_Missense_Mutation_p.Q386R|SEC23B_uc002wrb.1_Missense_Mutation_p.Q386R|SEC23B_uc010zsb.1_Missense_Mutation_p.Q368R|SEC23B_uc002wrc.1_Missense_Mutation_p.Q386R	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	386			Q -> R.		ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						CTCTTCAAGCAGACATTCCAA	0.338													12	57					0	0	0.001855	0	0	
PLK1S1	55857	broad.mit.edu	37	20	21143043	21143043	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:21143043G>A	uc002wsb.2	+	5	1070	c.937G>A	c.(937-939)GAA>AAA	p.E313K	PLK1S1_uc010zsh.1_Missense_Mutation_p.E210K|PLK1S1_uc010zsi.1_Missense_Mutation_p.E180K|PLK1S1_uc010zsj.1_RNA|uc002wsc.2_Intron|PLK1S1_uc002wsd.2_RNA	NM_018474	NP_060944	Q2M2Z5	KIZ_HUMAN	polo-like kinase 1 substrate 1 isoform 1	313					spindle organization	centrosome	protein kinase binding				0						TGAAGTTGAGGAAAAAAGAGC	0.443													6	17					0	0	0.002450	0	0	
NINL	22981	broad.mit.edu	37	20	25457060	25457060	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:25457060C>T	uc002wux.1	-	17	2941	c.2867G>A	c.(2866-2868)CGG>CAG	p.R956Q	NINL_uc010gdn.1_Intron	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	956					G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CTCCCACATCCGTGGCTGGGT	0.687													9	23					0	0	0.008291	0	0	
FAM83D	81610	broad.mit.edu	37	20	37580587	37580587	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:37580587G>A	uc002xjg.2	+	4	1313	c.1272G>A	c.(1270-1272)GAG>GAA	p.E424E		NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	394					cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				CTCAAACAGAGCCAGGAGAGG	0.547													6	56					0	0	0.001168	0	0	
MYBL2	4605	broad.mit.edu	37	20	42343837	42343837	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:42343837T>C	uc002xlb.1	+	13	2103	c.1888T>C	c.(1888-1890)TTG>CTG	p.L630L	MYBL2_uc010zwj.1_Silent_p.L606L	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	630						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AGACAACAGCTTGCTCAACCA	0.562													35	255					0	0	0.003755	0	0	
RIMS4	140730	broad.mit.edu	37	20	43385563	43385563	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:43385563C>G	uc002xms.2	-	5	567	c.567G>C	c.(565-567)GAG>GAC	p.E189D	RIMS4_uc010ggu.2_Missense_Mutation_p.E190D	NM_182970	NP_892015	Q9H426	RIMS4_HUMAN	regulating synaptic membrane exocytosis 4	189	C2.				exocytosis|neurotransmitter transport	cell junction|synapse				ovary(4)|central_nervous_system(1)	5		Myeloproliferative disorder(115;0.0122)				CCTGGGGACTCTCAGGAAACA	0.557													52	246					0	0	0.003610	0	0	
MATN4	8785	broad.mit.edu	37	20	43932985	43932985	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:43932985C>T	uc002xnn.2	-	3	713	c.526G>A	c.(526-528)GCG>ACG	p.A176T	MATN4_uc002xno.2_Missense_Mutation_p.A176T|MATN4_uc002xnp.2_Missense_Mutation_p.A176T|MATN4_uc010zwr.1_Missense_Mutation_p.A124T|MATN4_uc002xnr.1_Missense_Mutation_p.A176T|RBPJL_uc002xns.2_5'Flank|RBPJL_uc002xnt.2_5'Flank	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	176	VWFA 1.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CCCACGTCCGCGCGCTGCACC	0.687													4	39					0	0	0.009096	0	0	
PIGT	51604	broad.mit.edu	37	20	44047544	44047544	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:44047544G>A	uc002xoh.1	+	3	491	c.418G>A	c.(418-420)GCC>ACC	p.A140T	PIGT_uc010ghb.1_Missense_Mutation_p.A130T|PIGT_uc010zwt.1_Intron|PIGT_uc010ghd.1_Silent_p.A80A|PIGT_uc010ghc.1_Intron|PIGT_uc010ghe.1_Intron|PIGT_uc010ghf.1_Silent_p.A126A|PIGT_uc002xoj.1_Missense_Mutation_p.A140T|PIGT_uc002xok.1_Missense_Mutation_p.A140T|PIGT_uc010zwu.1_5'UTR|PIGT_uc002xoi.1_RNA|PIGT_uc010zwv.1_5'UTR|PIGT_uc010zww.1_Intron|PIGT_uc010zwx.1_Silent_p.A8A|PIGT_uc010zwy.1_Intron|PIGT_uc010zwz.1_Intron|PIGT_uc010zxa.1_Intron|PIGT_uc002xol.1_5'UTR|PIGT_uc010zxb.1_5'Flank	NM_015937	NP_057021	Q969N2	PIGT_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	140	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				GATCTTCTGCGCCTCTCTCAA	0.527													21	99					0	0	0.008871	0	0	
ZSWIM1	90204	broad.mit.edu	37	20	44511929	44511929	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:44511929G>C	uc010ghi.2	+	2	811	c.698G>C	c.(697-699)TGG>TCG	p.W233S	ZSWIM1_uc010zxh.1_Missense_Mutation_p.W106S	NM_080603	NP_542170	Q9BR11	ZSWM1_HUMAN	zinc finger, SWIM-type containing 1	233							zinc ion binding			skin(1)	1		Myeloproliferative disorder(115;0.028)				CACTCACACTGGCTGCTCAAC	0.587													14	74					0	0	0.001855	0	0	
SULF2	55959	broad.mit.edu	37	20	46365657	46365657	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:46365657G>A	uc002xto.2	-	3	535	c.205C>T	c.(205-207)CGC>TGC	p.R69C	SULF2_uc002xtr.2_Missense_Mutation_p.R69C|SULF2_uc002xtq.2_Missense_Mutation_p.R69C|SULF2_uc010ghv.1_Missense_Mutation_p.R69C	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	69					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TCCATGATGCGCCGGGTCTTG	0.637													7	53					0	0	0.001984	0	0	
CASS4	57091	broad.mit.edu	37	20	55027385	55027385	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:55027385T>C	uc002xxp.2	+	6	1378	c.1153T>C	c.(1153-1155)TCC>CCC	p.S385P	CASS4_uc002xxq.3_Missense_Mutation_p.S385P|CASS4_uc002xxr.2_Missense_Mutation_p.S385P|CASS4_uc010zze.1_Missense_Mutation_p.S331P|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	385	Ser-rich.				cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						CTCATGGTTCTCCAGACGGAC	0.532													8	51					0	0	0.006214	0	0	
TFAP2C	7022	broad.mit.edu	37	20	55211736	55211736	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:55211736A>G	uc002xya.2	+	6	1236	c.993A>G	c.(991-993)GCA>GCG	p.A331A	TFAP2C_uc010zzi.1_Silent_p.A162A	NM_003222	NP_003213	Q92754	AP2C_HUMAN	transcription factor AP-2 gamma	331	H-S-H (helix-span-helix), dimerization.				cell-cell signaling|male gonad development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Colorectal(105;0.229)			AACCAGTGGCAGAATATTTAA	0.433													14	63					0	0	0.002450	0	0	
ZNF831	128611	broad.mit.edu	37	20	57766555	57766555	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:57766555A>C	uc002yan.2	+	1	481	c.481A>C	c.(481-483)AAG>CAG	p.K161Q		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	161	C2H2-type 1.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					TGTTCTAGAGAAGCACATCCG	0.637													18	126					0	0	0.006122	0	0	
PRPF6	24148	broad.mit.edu	37	20	62657362	62657362	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr20:62657362G>A	uc002yho.2	+	15	2147	c.1979G>A	c.(1978-1980)CGG>CAG	p.R660Q	PRPF6_uc002yhp.2_Intron	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	660					assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					GAGTACGAGCGGGCCCGGAGG	0.662													25	166					0	0	0.002780	0	0	
SAMSN1	64092	broad.mit.edu	37	21	15870763	15870763	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr21:15870763T>G	uc002yju.1	-	7	1001	c.919A>C	c.(919-921)ATT>CTT	p.I307L	SAMSN1_uc010gky.1_Missense_Mutation_p.I139L|SAMSN1_uc002yjv.1_Missense_Mutation_p.I375L	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	307					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		ACACACTTACTTTCTTCTTCA	0.333													12	42					0	0	0.001855	0	0	
TMPRSS15	5651	broad.mit.edu	37	21	19666644	19666644	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr21:19666644C>A	uc002ykw.2	-	21	2460	c.2429G>T	c.(2428-2430)TGC>TTC	p.C810F		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	810	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						AGATGCGCCGCAGAGCAGTCG	0.572													18	48					5.3912e-06	5.88575e-06	0.006122	1	0	
RWDD2B	10069	broad.mit.edu	37	21	30380401	30380401	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr21:30380401C>A	uc002yms.2	-	4	493	c.406G>T	c.(406-408)GAT>TAT	p.D136Y	RWDD2B_uc002ymt.2_Missense_Mutation_p.D107Y|RWDD2B_uc002ymu.2_RNA|RWDD2B_uc002ymv.2_Missense_Mutation_p.D56Y	NM_016940	NP_058636	P57060	RWD2B_HUMAN	RWD domain containing 2B	136	RWD.										0						GCAGTCAGATCTGTGTTCAGC	0.393													11	34					6.40141e-05	6.86446e-05	0.000978	1	0	
KRTAP24-1	643803	broad.mit.edu	37	21	31654507	31654507	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr21:31654507G>A	uc002ynv.2	-	1	770	c.744C>T	c.(742-744)AGC>AGT	p.S248S		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	248	6 X 10 AA repeats of Y-[ILR]-[SVPC]- [NRTS]-[SNTG]-X-[QHRP]-[PSY]-[QSL]-[SRK].|6.					keratin filament	structural molecule activity				0						TCAGAGGTCTGCTACCACTGC	0.433													5	62					0	0	0.001168	0	0	
TIAM1	7074	broad.mit.edu	37	21	32492734	32492734	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr21:32492734A>G	uc002yow.1	-	29	5200	c.4728T>C	c.(4726-4728)GTT>GTC	p.V1576V	TIAM1_uc011adk.1_3'UTR|TIAM1_uc011adl.1_Silent_p.V1516V	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1576					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CTTCACGCCTAACCCAAATGA	0.557													7	21					0	0	0.004482	0	0	
DGCR2	9993	broad.mit.edu	37	22	19029346	19029346	+	Missense_Mutation	SNP	C	T	T	rs142513620		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:19029346C>T	uc002zoq.1	-	8	1381	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	DGCR2_uc002zor.1_Missense_Mutation_p.R154H|DGCR2_uc011agr.1_Missense_Mutation_p.R334H	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	378	Cytoplasmic (Potential).				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					GGACTCGATGCGCTCCCGGCG	0.647													8	37					0	0	0.003080	0	0	
HIRA	7290	broad.mit.edu	37	22	19363188	19363188	+	Missense_Mutation	SNP	C	A	A	rs116694036	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:19363188C>A	uc002zpf.1	-	15	1961	c.1741G>T	c.(1741-1743)GCC>TCC	p.A581S	HIRA_uc011agx.1_Missense_Mutation_p.A447S|HIRA_uc010grn.1_Missense_Mutation_p.A581S|HIRA_uc010gro.1_Missense_Mutation_p.A537S|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	581	Interaction with CCNA1.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					CTGGTCAGGGCAGGAGCACCT	0.577													7	51					8.12818e-05	8.67212e-05	0.001984	1	0	
ZDHHC8	29801	broad.mit.edu	37	22	20130522	20130522	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:20130522C>G	uc002zrq.2	+	10	1475	c.1369C>G	c.(1369-1371)CCC>GCC	p.P457A	ZDHHC8_uc002zrr.1_Missense_Mutation_p.P457A|ZDHHC8_uc010gsa.2_Missense_Mutation_p.P263A	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	457	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					TGAGGGGGGGCCCCCCACGCC	0.687													8	17					0	0	0.004482	0	0	
RTN4R	65078	broad.mit.edu	37	22	20230373	20230373	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:20230373G>A	uc002zrv.2	-	2	484	c.283C>T	c.(283-285)CGA>TGA	p.R95*	RTN4R_uc002zru.2_5'UTR	NM_023004	NP_075380	Q9BZR6	RTN4R_HUMAN	reticulon 4 receptor precursor	95	LRR 2.				axonogenesis|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	anchored to membrane|cell surface|endoplasmic reticulum|plasma membrane	protein binding|receptor activity				0	Colorectal(54;0.0993)					GCATCAATTCGGGCCAGCACA	0.627													4	28					0	0	0.009096	0	0	
P2RX6	9127	broad.mit.edu	37	22	21377428	21377428	+	Silent	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:21377428C>A	uc010gsu.1	+	6	579	c.579C>A	c.(577-579)GCC>GCA	p.A193A	P2RX6_uc002ztz.2_Silent_p.A167A|P2RX6_uc002zua.2_RNA|P2RX6_uc002zuc.1_RNA	NM_005446	NP_005437	O15547	P2RX6_HUMAN	purinergic receptor P2X6 isoform 1	193	Extracellular (Potential).				muscle contraction|protein homooligomerization	cell junction|cytoplasm|integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0						TGGCCCAGGCCCAGAACTTCA	0.582													15	74					3.27435e-08	3.65499e-08	0.002450	1	0	
CCDC116	164592	broad.mit.edu	37	22	21988490	21988490	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:21988490C>A	uc002zve.2	+	3	345	c.252C>A	c.(250-252)GAC>GAA	p.D84E	CCDC116_uc011aih.1_Missense_Mutation_p.D84E	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	84	Potential.									ovary(1)|skin(1)	2	Colorectal(54;0.105)					AGGTCCTGGACAGCCTGGAGA	0.617													12	51					5.16669e-11	5.90778e-11	0.000978	1	0	
ZNF280B	140883	broad.mit.edu	37	22	22843016	22843016	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:22843016T>C	uc002zwc.1	-	4	1484	c.708A>G	c.(706-708)CCA>CCG	p.P236P	LOC96610_uc011aim.1_Intron	NM_080764	NP_542942	Q86YH2	Z280B_HUMAN	zinc finger protein 280B	236					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		GAAAAGCTGCTGGAAAAGGTG	0.363													18	84					0	0	0.007413	0	0	
LOC96610	96610	broad.mit.edu	37	22	23090355	23090355	+	RNA	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:23090355A>G	uc011aim.1	+	203		c.10649A>G								Parts of antibodies, mostly variable regions.												0						GAGTCCAGGCAGAAGACGAGG	0.512													5	32					0	0	0.000602	0	0	
GNAZ	2781	broad.mit.edu	37	22	23465440	23465440	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:23465440A>T	uc002zwu.1	+	3	1427	c.890A>T	c.(889-891)TAC>TTC	p.Y297F	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	297						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		CAGAACACGTACGAGGAGGCC	0.572													11	42					0	0	0.000978	0	0	
LOC91316	91316	broad.mit.edu	37	22	23981009	23981009	+	RNA	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:23981009G>A	uc002zxh.3	-	5		c.3481C>T			LOC91316_uc002zxi.3_RNA|LOC91316_uc002zxk.3_RNA|LOC91316_uc010gua.2_RNA|LOC91316_uc002zxl.3_RNA|LOC91316_uc011aiz.1_RNA					Homo sapiens cDNA FLJ32313 fis, clone PROST2003232, weakly similar to BETA-GLUCURONIDASE PRECURSOR (EC 3.2.1.31).												0						CTGCCTTCCAGGTCACCATCA	0.547													6	43					0	0	0.001168	0	0	
GGT1	2678	broad.mit.edu	37	22	25024357	25024357	+	Splice_Site	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:25024357T>C	uc003aan.1	+	15	2050	c.1563_splice	c.e15+2	p.Q521_splice	GGT1_uc003aat.1_Splice_Site_p.Q521_splice|GGT1_uc003aau.1_Splice_Site_p.Q521_splice|GGT1_uc003aav.1_Splice_Site_p.Q521_splice|GGT1_uc003aaw.1_Splice_Site_p.Q521_splice|GGT1_uc003aax.1_Splice_Site_p.Q521_splice|GGT1_uc003aay.1_Splice_Site_p.Q177_splice	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor						glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	ATTGACCAGGTGGGCCGGGGG	0.612													6	43					0	0	0.003080	0	0	
CRYBB3	1417	broad.mit.edu	37	22	25603126	25603126	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:25603126C>T	uc003abo.1	+	6	655	c.583C>T	c.(583-585)CGC>TGC	p.R195C		NM_004076	NP_004067	P26998	CRBB3_HUMAN	crystallin, beta B3	195	Beta/gamma crystallin 'Greek key' 4.				visual perception		protein binding|structural constituent of eye lens				0						GCAGTCTGTGCGCCGCATCCG	0.662													8	36					0	0	0.003080	0	0	
MN1	4330	broad.mit.edu	37	22	28193409	28193409	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:28193409C>T	uc003adj.2	-	1	4078	c.3123G>A	c.(3121-3123)GTG>GTA	p.V1041V		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	1041							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						CGAACTCACCCACGTTTGGCG	0.627			T	ETV6	AML|meningioma								8	40					0	0	0.006214	0	0	
HMOX1	3162	broad.mit.edu	37	22	35782986	35782986	+	Silent	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:35782986C>A	uc003ant.1	+	3	533	c.453C>A	c.(451-453)GCC>GCA	p.A151A		NM_002133	NP_002124	P09601	HMOX1_HUMAN	heme oxygenase (decyclizing) 1	151					angiogenesis|anti-apoptosis|cell death|cellular iron ion homeostasis|endothelial cell proliferation|erythrocyte homeostasis|heme catabolic process|heme oxidation|intracellular protein kinase cascade|low-density lipoprotein particle clearance|negative regulation of leukocyte migration|negative regulation of smooth muscle cell proliferation|positive regulation of chemokine biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of smooth muscle cell proliferation|protein homooligomerization|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hydrogen peroxide|response to nicotine|smooth muscle hyperplasia|transmembrane transport|wound healing involved in inflammatory response	endoplasmic reticulum membrane|extracellular space|microsome	enzyme binding|heme binding|heme oxygenase (decyclizing) activity|protein homodimerization activity|signal transducer activity			ovary(1)	1					NADH(DB00157)	AAAAGATTGCCCAGAAAGCCC	0.642													5	69					0.000602214	0.000634503	0.000602	1	0	
C1QTNF6	114904	broad.mit.edu	37	22	37578760	37578760	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:37578760G>C	uc003aqw.1	-	2	753	c.248C>G	c.(247-249)CCA>CGA	p.P83R	C1QTNF6_uc003aqx.1_Missense_Mutation_p.P102R|C1QTNF6_uc003aqy.1_Missense_Mutation_p.P102R|C1QTNF6_uc003aqz.1_Intron	NM_182486	NP_872292	Q9BXI9	C1QT6_HUMAN	C1q and tumor necrosis factor related protein 6	83	Collagen-like.					collagen					0						CATTGGGCCTGGGTCCCCTTT	0.642													5	14					0	0	0.000602	0	0	
SOX10	6663	broad.mit.edu	37	22	38370125	38370125	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:38370125C>T	uc003aun.1	-	4	1056	c.778G>A	c.(778-780)GGG>AGG	p.G260R	POLR2F_uc003aum.2_Intron|SOX10_uc003auo.1_Missense_Mutation_p.G260R	NM_006941	NP_008872	P56693	SOX10_HUMAN	SRY (sex determining region Y)-box 10	260						cytoplasm|nucleus	DNA binding|identical protein binding|transcription coactivator activity				0	Melanoma(58;0.045)					ATGGAGCGCCCGTCCCGCTTC	0.622													17	121					0	0	0.006122	0	0	
SOX10	6663	broad.mit.edu	37	22	38373944	38373944	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:38373944G>A	uc003aun.1	-	3	905	c.627C>T	c.(625-627)AGC>AGT	p.S209S	POLR2F_uc003aum.2_Intron|SOX10_uc003auo.1_Silent_p.S209S	NM_006941	NP_008872	P56693	SOX10_HUMAN	SRY (sex determining region Y)-box 10	209						cytoplasm|nucleus	DNA binding|identical protein binding|transcription coactivator activity				0	Melanoma(58;0.045)					CCAAGTGGGCGCTCTTGTAGT	0.701													5	22					0	0	0.000602	0	0	
FAM83F	113828	broad.mit.edu	37	22	40417839	40417839	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:40417839T>A	uc003ayk.1	+	4	1419	c.1325T>A	c.(1324-1326)CTC>CAC	p.L442H		NM_138435	NP_612444	Q8NEG4	FA83F_HUMAN	hypothetical protein LOC113828	442										breast(1)	1						AGCAGCAGGCTCTTCAGTCGC	0.672													8	26					0	0	0.003080	0	0	
PACSIN2	11252	broad.mit.edu	37	22	43280459	43280459	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:43280459G>A	uc010gzg.2	-	6	940	c.718C>T	c.(718-720)CGC>TGC	p.R240C	PACSIN2_uc003bdg.3_Missense_Mutation_p.R240C|PACSIN2_uc003bde.3_Missense_Mutation_p.R240C|PACSIN2_uc003bdf.3_Missense_Mutation_p.R240C	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	240					actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)				AAGCGAAGGCGTTTCTCCTCG	0.527													11	65					0	0	0.008291	0	0	
SMC1B	27127	broad.mit.edu	37	22	45755702	45755702	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:45755702C>A	uc003bgc.2	-	18	2897	c.2845G>T	c.(2845-2847)GAC>TAC	p.D949Y	SMC1B_uc003bgd.2_Missense_Mutation_p.D949Y	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	949					chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TCAATGATGTCATCCAGTGAC	0.398													17	43					1.01871e-10	1.16169e-10	0.008871	1	0	
GTSE1	51512	broad.mit.edu	37	22	46704360	46704360	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:46704360C>T	uc011aqy.1	+	4	494	c.282C>T	c.(280-282)GCC>GCT	p.A94A	GTSE1_uc011aqz.1_5'UTR	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	75					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		GCCCTCTGGCCGGGGAGAAGT	0.537													17	71					0	0	0.006122	0	0	
CELSR1	9620	broad.mit.edu	37	22	46931942	46931942	+	Missense_Mutation	SNP	G	A	A	rs148833987		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:46931942G>A	uc003bhw.1	-	1	1126	c.1126C>T	c.(1126-1128)CGC>TGC	p.R376C		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	376	Extracellular (Potential).|Cadherin 2.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TCGCTGGCGCGGATGGTCAGC	0.657													6	21					0	0	0.001168	0	0	
MOV10L1	54456	broad.mit.edu	37	22	50530569	50530569	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:50530569A>G	uc003bjj.2	+	2	320	c.237A>G	c.(235-237)GCA>GCG	p.A79A	MOV10L1_uc003bjk.3_Silent_p.A79A|MOV10L1_uc011arp.1_Silent_p.A59A|MOV10L1_uc010han.2_Silent_p.A59A	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	79					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		AAGTGATTGCAGTTGTGGAAG	0.433													12	58					0	0	0.001855	0	0	
TYMP	1890	broad.mit.edu	37	22	50967983	50967983	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr22:50967983C>T	uc003bmb.3	-	1	276	c.156G>A	c.(154-156)GCG>GCA	p.A52A	TYMP_uc003bmc.3_Silent_p.A52A|TYMP_uc003bmd.3_Silent_p.A52A|TYMP_uc010hbd.2_Silent_p.A52A|TYMP_uc003bme.3_Silent_p.A52A|TYMP_uc003bmf.3_Silent_p.A52A|TYMP_uc011arz.1_Silent_p.A52A	NM_001113756	NP_001107228	P19971	TYPH_HUMAN	endothelial cell growth factor 1	52					angiogenesis|cell differentiation|chemotaxis|DNA replication|mitochondrial genome maintenance|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|pyrimidine nucleotide metabolic process	cytosol	growth factor activity|platelet-derived growth factor receptor binding|pyrimidine-nucleoside phosphorylase activity|thymidine phosphorylase activity			ovary(1)	1		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)	Capecitabine(DB01101)|Docetaxel(DB01248)|Floxuridine(DB00322)|Fluorouracil(DB00544)|Sulfasalazine(DB00795)|Tamoxifen(DB00675)	CCCTGATGTCCGCTTCGCTCA	0.692													7	35					0	0	0.003080	0	0	
SRGAP3	9901	broad.mit.edu	37	3	9027389	9027389	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:9027389G>A	uc003brf.1	-	22	3790	c.3114C>T	c.(3112-3114)ACC>ACT	p.T1038T	SRGAP3_uc003brg.1_Silent_p.T1014T	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	1038					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		CTGGCTTGAAGGTGGTCATCA	0.721			T	RAF1	pilocytic astrocytoma								9	23					0	0	0.006214	0	0	
SRGAP3	9901	broad.mit.edu	37	3	9074409	9074409	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:9074409C>A	uc003brf.1	-	12	2140	c.1464G>T	c.(1462-1464)CAG>CAT	p.Q488H	SRGAP3_uc003brg.1_Intron|SRGAP3_uc003bri.1_RNA	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	488	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		TCCTCATTTTCTGTGGTTTAG	0.458			T	RAF1	pilocytic astrocytoma								18	47					1.33834e-09	1.51189e-09	0.007413	1	0	
LHFPL4	375323	broad.mit.edu	37	3	9594221	9594221	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:9594221C>T	uc003bry.2	-	2	429	c.143G>A	c.(142-144)GGC>GAC	p.G48D		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	48						integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)					CACGCTGTCGCCCACCCAGTA	0.657													5	23					0	0	0.000602	0	0	
TADA3	10474	broad.mit.edu	37	3	9831526	9831526	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:9831526G>C	uc003bsx.1	-	3	877	c.329C>G	c.(328-330)GCA>GGA	p.A110G	TADA3_uc010hcn.1_Missense_Mutation_p.A110G|TADA3_uc003bsy.2_Missense_Mutation_p.A110G|ARPC4_uc003bsz.1_5'Flank|ARPC4_uc003bta.1_5'Flank|ARPC4_uc003btb.1_5'Flank|ARPC4_uc003btc.1_5'Flank	NM_006354	NP_006345	O75528	TADA3_HUMAN	transcriptional adaptor 3 isoform a	110					estrogen receptor signaling pathway|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	ligand-dependent nuclear receptor binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity				0						CCCATGTCCTGCCTTCCCTTC	0.547													17	85					0	0	0.006122	0	0	
CRELD1	78987	broad.mit.edu	37	3	9982881	9982881	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:9982881A>G	uc003bug.2	+	7	842	c.724A>G	c.(724-726)AAG>GAG	p.K242E	CIDEC_uc003bto.2_Intron|CRELD1_uc003buf.2_Missense_Mutation_p.K242E|CRELD1_uc003buh.2_Missense_Mutation_p.K242E|CRELD1_uc003bui.2_Missense_Mutation_p.K242E|CRELD1_uc003buj.2_RNA	NM_001077415	NP_001070883	Q96HD1	CREL1_HUMAN	cysteine-rich with EGF-like domains 1 isoform 3	242	FU 1.|Extracellular (Potential).				cardiac septum development|endocardial cushion development	integral to membrane	calcium ion binding			ovary(1)	1						GCATCACCTCAAGTGTGTAGG	0.493													9	48					0	0	0.004482	0	0	
SUSD5	26032	broad.mit.edu	37	3	33194483	33194483	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:33194483G>A	uc003cfo.1	-	5	2059	c.1641C>T	c.(1639-1641)CCC>CCT	p.P547P		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	547	Extracellular (Potential).				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						CACCTGGCCCGGGGCCTTCCT	0.577													10	25					0	0	0.006214	0	0	
LRRC2	79442	broad.mit.edu	37	3	46586647	46586647	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:46586647C>T	uc010hji.2	-	3	586	c.222G>A	c.(220-222)CGG>CGA	p.R74R	LRRC2_uc003cpu.3_Silent_p.R74R	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	74										ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		TGTCCAGAAGCCGCACGCTGG	0.512													32	117					0	0	0.003271	0	0	
NBEAL2	23218	broad.mit.edu	37	3	47045860	47045860	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:47045860C>A	uc003cqp.2	+	37	6354	c.6175C>A	c.(6175-6177)CTG>ATG	p.L2059M	NBEAL2_uc010hjm.1_Missense_Mutation_p.L1436M|NBEAL2_uc010hjn.1_Missense_Mutation_p.L455M|NBEAL2_uc010hjo.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	2059	BEACH.						binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		CCAGGAGATGCTGCGTGCCTC	0.652													8	41					0.000157383	0.000167704	0.003080	1	0	
CELSR3	1951	broad.mit.edu	37	3	48691836	48691836	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:48691836G>A	uc003cul.2	-	7	5319	c.5038C>T	c.(5038-5040)CCC>TCC	p.P1680S	CELSR3_uc003cuf.1_Missense_Mutation_p.P1750S|CELSR3_uc010hkg.2_5'Flank	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1680	Extracellular (Potential).|Laminin G-like 1.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AAGTTCTCGGGGAGGTTGGGG	0.592													8	22					0	0	0.004482	0	0	
CELSR3	1951	broad.mit.edu	37	3	48696932	48696932	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:48696932G>T	uc003cul.2	-	1	3417	c.3136C>A	c.(3136-3138)CCA>ACA	p.P1046T	CELSR3_uc003cuf.1_Missense_Mutation_p.P1116T	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1046	Extracellular (Potential).|Cadherin 7.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GTCCGGAGTGGGGGCACACCT	0.557													30	128					1.13719e-10	1.29505e-10	0.008361	1	0	
RNF123	63891	broad.mit.edu	37	3	49740928	49740928	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:49740928G>T	uc003cxh.2	+	21	1905	c.1819G>T	c.(1819-1821)GGC>TGC	p.G607C	RNF123_uc010hky.1_Missense_Mutation_p.G269C|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	607						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		GCGCCTGGGGGGCCTCCTCTC	0.632											OREG0015571	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	26					0.004672	0.00482621	0.004672	1	0	
GRM2	2912	broad.mit.edu	37	3	51749114	51749114	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:51749114G>A	uc010hlv.2	+	4	1564	c.1325G>A	c.(1324-1326)CGC>CAC	p.R442H	GRM2_uc003dbo.3_5'UTR|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	442	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	AATGAGGTCCGCTTTGACCGC	0.562													8	30					0	0	0.008291	0	0	
PARP3	10039	broad.mit.edu	37	3	51981822	51981822	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:51981822G>C	uc003dby.2	+	10	1714	c.1343G>C	c.(1342-1344)AGA>ACA	p.R448T	PARP3_uc003dbz.2_Missense_Mutation_p.R455T	NM_005485	NP_005476	Q9Y6F1	PARP3_HUMAN	poly (ADP-ribose) polymerase family, member 3	448	PARP catalytic.				DNA repair|protein ADP-ribosylation	centriole|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GCCCTGGGCAGAGAGCACCAT	0.607													14	102					0	0	0.003163	0	0	
PCBP4	57060	broad.mit.edu	37	3	51992870	51992870	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:51992870G>A	uc003dcd.1	-	11	1255	c.859C>T	c.(859-861)CGG>TGG	p.R287W	PCBP4_uc003dcb.1_Missense_Mutation_p.R253W|PCBP4_uc003dcc.1_Missense_Mutation_p.R308W|PCBP4_uc003dce.1_Missense_Mutation_p.A288V|PCBP4_uc003dcf.1_Missense_Mutation_p.R287W|PCBP4_uc003dcg.1_Missense_Mutation_p.R253W|PCBP4_uc003dch.1_Missense_Mutation_p.R287W|PCBP4_uc003dci.1_Missense_Mutation_p.R127W|PCBP4_uc003dcj.1_Missense_Mutation_p.R287W|PCBP4_uc003dck.1_Missense_Mutation_p.R244W|PCBP4_uc003dcl.1_Missense_Mutation_p.R287W	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	287	KH 3.					cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GTGACATGCCGCTCCCCAGCG	0.652													12	71					0	0	0.000978	0	0	
NT5DC2	64943	broad.mit.edu	37	3	52562296	52562296	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:52562296A>T	uc003deo.2	-	6	987	c.563T>A	c.(562-564)TTC>TAC	p.F188Y	NT5DC2_uc003dem.2_Missense_Mutation_p.F58Y|NT5DC2_uc003den.2_Missense_Mutation_p.F225Y|NT5DC2_uc010hmi.2_Missense_Mutation_p.F200Y|NT5DC2_uc010hmj.2_Missense_Mutation_p.F4Y	NM_022908	NP_075059	Q9H857	NT5D2_HUMAN	5'-nucleotidase domain containing 2 isoform 2	188							hydrolase activity|metal ion binding				0				BRCA - Breast invasive adenocarcinoma(193;1.7e-05)|Kidney(197;0.00177)|KIRC - Kidney renal clear cell carcinoma(197;0.002)|OV - Ovarian serous cystadenocarcinoma(275;0.0476)		CGGTAGCGAGAAGATGTCCAT	0.582													10	63					0	0	0.006214	0	0	
CNTN3	5067	broad.mit.edu	37	3	74349051	74349051	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:74349051C>T	uc003dpm.1	-	16	2214	c.2134G>A	c.(2134-2136)GGA>AGA	p.G712R		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	712	Fibronectin type-III 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		GACCGGCTTCCGCCTCCTCCA	0.443													4	38					0	0	0.004482	0	0	
C3orf26	84319	broad.mit.edu	37	3	99895194	99895194	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:99895194A>G	uc003dtl.2	+	9	834	c.691A>G	c.(691-693)AAA>GAA	p.K231E		NM_032359	NP_115735	Q9BQ75	CC026_HUMAN	hypothetical protein LOC84319	231							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(1)	1						GAGCCCCTTAAAATTTCTGGT	0.398													7	38					0	0	0.001984	0	0	
PHLDB2	90102	broad.mit.edu	37	3	111632518	111632518	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:111632518G>A	uc010hqa.2	+	3	2099	c.1688G>A	c.(1687-1689)AGC>AAC	p.S563N	PHLDB2_uc003dyc.2_Missense_Mutation_p.S590N|PHLDB2_uc003dyd.2_Missense_Mutation_p.S563N|PHLDB2_uc003dyg.2_Missense_Mutation_p.S563N|PHLDB2_uc003dyh.2_Missense_Mutation_p.S563N|PHLDB2_uc003dyi.2_Missense_Mutation_p.S149N|PHLDB2_uc003dyf.3_Missense_Mutation_p.S563N	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	563						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						AAAGCTTCCAGCGAGTCCTCT	0.498													41	155					0	0	0.008740	0	0	
NR1I2	8856	broad.mit.edu	37	3	119531555	119531555	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:119531555G>A	uc003edj.2	+	5	2381	c.542G>A	c.(541-543)GGC>GAC	p.G181D	NR1I2_uc003edi.2_Intron|NR1I2_uc003edk.2_Missense_Mutation_p.G220D|NR1I2_uc003edl.2_Missense_Mutation_p.G69D	NM_003889	NP_003880	O75469	NR1I2_HUMAN	nuclear receptor subfamily 1, group I, member 2	181	Hinge.				drug export|exogenous drug catabolic process|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid metabolic process|xenobiotic metabolic process|xenobiotic transport	nucleoplasm	drug binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(114;0.175)	Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Rifampin(DB01045)|Vitamin E(DB00163)	CTTAGCAGTGGCTGCGAGTTG	0.587													10	107					0	0	0.008291	0	0	
SEC22A	26984	broad.mit.edu	37	3	122928161	122928161	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:122928161T>C	uc003ege.2	+	2	176	c.97T>C	c.(97-99)TGC>CGC	p.C33R	SEC22A_uc003egf.2_Missense_Mutation_p.C33R	NM_012430	NP_036562	Q96IW7	SC22A_HUMAN	SEC22 vesicle trafficking protein homolog A	33	Cytoplasmic (Potential).|Longin.				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|integral to membrane	transporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0548)		AATGCAGGAGTGCAGAAAGTA	0.373													5	51					0	0	0.000602	0	0	
CEP63	80254	broad.mit.edu	37	3	134267988	134267988	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:134267988T>C	uc003eqo.1	+	11	1601	c.1152T>C	c.(1150-1152)CAT>CAC	p.H384H	CEP63_uc003eql.1_Silent_p.H338H|CEP63_uc003eqm.2_Silent_p.H338H|CEP63_uc003eqn.1_Silent_p.H384H|CEP63_uc003eqp.1_Silent_p.H13H	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	384	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						TGGAAGCACATAACAATGAAT	0.358													11	37					0	0	0.008291	0	0	
ATR	545	broad.mit.edu	37	3	142259852	142259852	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:142259852T>A	uc003eux.3	-	18	3597	c.3475A>T	c.(3475-3477)ATG>TTG	p.M1159L		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1159					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						ATTAACTTCATCAAAGACATC	0.428								Other_conserved_DNA_damage_response_genes					17	36					0	0	0.004990	0	0	
CHST2	9435	broad.mit.edu	37	3	142840454	142840454	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:142840454G>A	uc003evm.2	+	2	1685	c.796G>A	c.(796-798)GCC>ACC	p.A266T		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	266	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						ACTCTGCCCCGCCTACCGCAA	0.677													5	13					0	0	0.000602	0	0	
IGSF10	285313	broad.mit.edu	37	3	151160982	151160982	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:151160982A>G	uc011bod.1	-	5	5753	c.5753T>C	c.(5752-5754)ATT>ACT	p.I1918T	IGSF10_uc011bob.1_5'Flank|IGSF10_uc011boc.1_5'Flank	NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1918	Ig-like C2-type 5.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ACTGGTAGCAATGCATTCATA	0.433													41	100					0	0	0.008740	0	0	
PLCH1	23007	broad.mit.edu	37	3	155271897	155271897	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:155271897C>T	uc011bok.1	-	8	1399	c.1122G>A	c.(1120-1122)GAG>GAA	p.E374E	PLCH1_uc011boj.1_Silent_p.E374E|PLCH1_uc011bol.1_Silent_p.E356E	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	374	PI-PLC X-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TGTTGATGGTCTCCACAACAT	0.468													15	65					0	0	0.003163	0	0	
MFSD1	64747	broad.mit.edu	37	3	158545116	158545116	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:158545116T>C	uc003fcl.1	+	15	1414	c.1384T>C	c.(1384-1386)TCC>CCC	p.S462P	MFSD1_uc003fcm.1_RNA|MFSD1_uc003fcn.1_Missense_Mutation_p.S365P|MFSD1_uc011bow.1_Missense_Mutation_p.S423P|MFSD1_uc011box.1_Missense_Mutation_p.S389P	NM_022736	NP_073573	Q9H3U5	MFSD1_HUMAN	major facilitator superfamily domain containing	462					transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AATAAAATTTTCCCATACTGA	0.279													22	59					0	0	0.002299	0	0	
WDR49	151790	broad.mit.edu	37	3	167218047	167218047	+	Silent	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:167218047C>G	uc003fev.1	-	14	2175	c.1869G>C	c.(1867-1869)CTG>CTC	p.L623L	WDR49_uc003feu.1_Silent_p.L448L|WDR49_uc011bpd.1_Silent_p.L588L|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	623										large_intestine(1)|ovary(1)|skin(1)	3						TCACTTCAGGCAGCTCTTCCA	0.443													49	198					0	0	0.003610	0	0	
NLGN1	22871	broad.mit.edu	37	3	173997321	173997321	+	Silent	SNP	C	A	A	rs140933912		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:173997321C>A	uc003fio.1	+	6	1953	c.1530C>A	c.(1528-1530)CCC>CCA	p.P510P	NLGN1_uc010hww.1_Silent_p.P550P|NLGN1_uc003fip.1_Silent_p.P510P	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	527	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			ACGAGGTTCCCTATGTACTGG	0.458													8	59					0.00307968	0.0032009	0.003080	1	0	
NLGN1	22871	broad.mit.edu	37	3	173998407	173998407	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:173998407G>C	uc003fio.1	+	7	2209	c.1786G>C	c.(1786-1788)GAA>CAA	p.E596Q	NLGN1_uc003fip.1_Missense_Mutation_p.E596Q	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	613	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			AAGAGTTAAAGAACATTACAG	0.383													20	108					0	0	0.007413	0	0	
EPHB3	2049	broad.mit.edu	37	3	184295229	184295229	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:184295229G>T	uc003foz.2	+	6	1890	c.1453G>T	c.(1453-1455)GAC>TAC	p.D485Y		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	485	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			AGTCATCCTGGACTACGAGAT	0.602													14	78					2.61681e-11	2.99622e-11	0.002450	1	0	
OPA1	4976	broad.mit.edu	37	3	193335014	193335014	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:193335014G>C	uc003ftm.2	+	4	730	c.496G>C	c.(496-498)GCA>CCA	p.A166P	OPA1_uc003ftg.2_Missense_Mutation_p.A166P|OPA1_uc003fth.2_Intron|OPA1_uc003fti.2_Missense_Mutation_p.A166P|OPA1_uc003ftj.2_Missense_Mutation_p.A166P|OPA1_uc003ftk.2_Intron|OPA1_uc003ftl.2_Intron|OPA1_uc003ftn.2_Intron	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	166	Mitochondrial intermembrane (By similarity).				apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		TGTAAAGTTAGCACCAGACTT	0.303													11	39					0	0	0.003163	0	0	
SDHAP2	727956	broad.mit.edu	37	3	195400728	195400728	+	Silent	SNP	A	G	G	rs12107841	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr3:195400728A>G	uc003fuw.2	+	9	1218	c.24A>G	c.(22-24)CCA>CCG	p.P8P	SDHAP2_uc011btb.1_Missense_Mutation_p.S156G|SDHAP2_uc011btc.1_RNA|SDHAP2_uc003fuv.2_RNA					SubName: Full=cDNA FLJ16373 fis, clone THYMU3000269, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial (EC 1.3.5.1);												0						GATTGTGCCCAGCCTGTACGC	0.587													4	35					0	0	0.001168	0	0	
FAM193A	8603	broad.mit.edu	37	4	2696824	2696824	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:2696824T>A	uc010icl.2	+	15	2722	c.2371T>A	c.(2371-2373)TGC>AGC	p.C791S	FAM193A_uc010ick.2_Missense_Mutation_p.C991S|FAM193A_uc003gfd.2_Missense_Mutation_p.C791S|FAM193A_uc011bvm.1_Missense_Mutation_p.C813S|FAM193A_uc011bvn.1_Missense_Mutation_p.C791S|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_Intron|FAM193A_uc003gfe.2_Missense_Mutation_p.C645S	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	791										ovary(3)	3						GTACTGCGACTGCTGCTACTG	0.572													5	21					0	0	0.000602	0	0	
CCDC149	91050	broad.mit.edu	37	4	24838869	24838869	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:24838869C>T	uc011bxr.1	-	7	787	c.643G>A	c.(643-645)GCC>ACC	p.A215T	CCDC149_uc003grc.2_Missense_Mutation_p.A215T|CCDC149_uc003grb.2_RNA|CCDC149_uc003grd.2_Intron|CCDC149_uc003gre.2_Missense_Mutation_p.A160T|CCDC149_uc011bxq.1_Missense_Mutation_p.A88T	NM_173463	NP_775734	B4DZG3	B4DZG3_HUMAN	coiled-coil domain containing 149 isoform 1	215											0		Breast(46;0.173)				ATACACAGGGCGTCCACGTCA	0.582													4	29					0	0	0.009096	0	0	
PGM2	55276	broad.mit.edu	37	4	37848854	37848854	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:37848854A>G	uc011byb.1	+	10	1293	c.1220A>G	c.(1219-1221)AAC>AGC	p.N407S	PGM2_uc011bya.1_Missense_Mutation_p.N268S|PGM2_uc011byc.1_Missense_Mutation_p.N247S	NM_018290	NP_060760	Q96G03	PGM2_HUMAN	phosphoglucomutase 2	407					glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity|phosphopentomutase activity			ovary(1)	1						TGGATGGGAAACAGAGCCAAA	0.378													11	57					0	0	0.000978	0	0	
GUF1	60558	broad.mit.edu	37	4	44684428	44684428	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:44684428G>T	uc003gww.3	+	5	792	c.585G>T	c.(583-585)AAG>AAT	p.K195N	GUF1_uc010ifz.1_RNA	NM_021927	NP_068746	Q8N442	GUF1_HUMAN	GUF1 GTPase homolog	195	GTP (By similarity).				translation	mitochondrial inner membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1						TTATAAATAAGGTAATTACAA	0.338													14	72					1.05317e-09	1.19134e-09	0.002450	1	0	
GABRA4	2557	broad.mit.edu	37	4	46967014	46967014	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:46967014T>C	uc003gxg.2	-	8	1246	c.1107A>G	c.(1105-1107)AGA>AGG	p.R369R		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	369	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GATGCTTCTCTCTCTGCACTG	0.423													9	65					0	0	0.004482	0	0	
OCIAD1	54940	broad.mit.edu	37	4	48852083	48852083	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:48852083C>T	uc003gyo.2	+	6	618	c.361C>T	c.(361-363)CGA>TGA	p.R121*	OCIAD1_uc011bzk.1_RNA|OCIAD1_uc003gyr.2_Nonsense_Mutation_p.R121*|OCIAD1_uc003gyp.2_Nonsense_Mutation_p.R121*|OCIAD1_uc003gys.2_Nonsense_Mutation_p.R121*|OCIAD1_uc003gyq.2_Nonsense_Mutation_p.R121*|OCIAD1_uc010igk.2_Nonsense_Mutation_p.R126*	NM_017830	NP_060300	Q9NX40	OCAD1_HUMAN	OCIA domain containing 1 isoform 1	121						endosome	protein binding				0						ACAAGCACGACGATCTTCACC	0.373													14	62					0	0	0.003163	0	0	
LRRC66	339977	broad.mit.edu	37	4	52862042	52862042	+	Silent	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:52862042T>G	uc003gzi.2	-	4	1159	c.1146A>C	c.(1144-1146)TCA>TCC	p.S382S		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	382	Helical; (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						TGATGAACACTGACAGGCACA	0.572													10	33					0	0	0.006214	0	0	
KIT	3815	broad.mit.edu	37	4	55594223	55594223	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:55594223A>C	uc010igr.2	+	13	2013	c.1926A>C	c.(1924-1926)AAA>AAC	p.K642N	KIT_uc010igs.2_Missense_Mutation_p.K638N|KIT_uc010igt.1_Missense_Mutation_p.K91N	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	642	Protein kinase.|Cytoplasmic (Potential).				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity	p.K642E(55)|p.K642Q(1)		soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CTGAACTCAAAGTCCTGAGTT	0.438		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				8	59					0	0	0.004482	0	0	
KDR	3791	broad.mit.edu	37	4	55958806	55958806	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:55958806A>T	uc003has.2	-	22	3349	c.3047T>A	c.(3046-3048)ATG>AAG	p.M1016K	KDR_uc003hat.1_Missense_Mutation_p.M1016K	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	1016	Protein kinase.|Cytoplasmic (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	CAAGAACTCCATGCCCTTAGC	0.473			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			5	49					0	0	0.000602	0	0	
CLOCK	9575	broad.mit.edu	37	4	56345861	56345861	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:56345861T>G	uc003haz.1	-	6	979	c.53A>C	c.(52-54)GAC>GCC	p.D18A	CLOCK_uc003hba.1_Missense_Mutation_p.D18A	NM_004898	NP_004889	O15516	CLOCK_HUMAN	clock	18					circadian rhythm|photoperiodism|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|transcription factor complex	DNA binding|histone acetyltransferase activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(11;0.00335)|Glioma(25;0.08)|all_epithelial(27;0.0992)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0107)			AATACTACTGTCATCTCTAAA	0.318													11	45					0	0	0.000978	0	0	
TMPRSS11D	9407	broad.mit.edu	37	4	68693133	68693133	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:68693133A>G	uc003hdq.2	-	8	863	c.798T>C	c.(796-798)TCT>TCC	p.S266S	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc003hdp.2_Silent_p.S47S|TMPRSS11D_uc011caj.1_Silent_p.S149S	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	266	Peptidase S1.|Extracellular (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						CATGAGTTGCAGATTTATAAT	0.373													9	51					0	0	0.004482	0	0	
TMPRSS11F	389208	broad.mit.edu	37	4	68930432	68930432	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:68930432A>G	uc003hdt.1	-	8	1035	c.986T>C	c.(985-987)GTC>GCC	p.V329A	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron|SYT14L_uc010ihn.2_5'Flank	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	329	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						AAATCCTGTGACGAACACACT	0.393													8	77					0	0	0.004482	0	0	
RASSF6	166824	broad.mit.edu	37	4	74453644	74453644	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:74453644G>A	uc003hhd.1	-	5	514	c.391C>T	c.(391-393)CGC>TGC	p.R131C	RASSF6_uc003hhc.1_Missense_Mutation_p.R99C|RASSF6_uc010iik.1_Missense_Mutation_p.R99C|RASSF6_uc010iil.1_Missense_Mutation_p.R87C	NM_201431	NP_958834	Q6ZTQ3	RASF6_HUMAN	Ras association (RalGDS/AF-6) domain family 6	131					apoptosis|signal transduction		protein binding			pancreas(2)	2	Breast(15;0.00102)		all cancers(17;0.00104)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)			TCCCCCCAGCGTGTCATTCTG	0.368													6	82					0	0	0.001984	0	0	
SCD5	79966	broad.mit.edu	37	4	83719567	83719567	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:83719567G>A	uc003hna.2	-	1	444	c.124C>T	c.(124-126)CGG>TGG	p.R42W	SCD5_uc003hnb.3_Missense_Mutation_p.R42W|SCD5_uc003hnc.2_Missense_Mutation_p.R42W	NM_001037582	NP_001032671	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5 isoform a	42					fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity			ovary(1)	1		Colorectal(4;0.0323)|Hepatocellular(203;0.115)				ATGTTCTGCCGCTGCCCGCGC	0.647													3	21					0	0	0.000602	0	0	
SEC31A	22872	broad.mit.edu	37	4	83783724	83783724	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:83783724A>G	uc003hnf.2	-	13	1675	c.1511T>C	c.(1510-1512)ATT>ACT	p.I504T	SEC31A_uc003hne.2_Intron|SEC31A_uc011ccl.1_Intron|SEC31A_uc003hnl.2_Intron|SEC31A_uc003hng.2_Missense_Mutation_p.I504T|SEC31A_uc003hnh.2_Missense_Mutation_p.I504T|SEC31A_uc003hni.2_Missense_Mutation_p.I504T|SEC31A_uc003hnj.2_Intron|SEC31A_uc011ccm.1_Missense_Mutation_p.I499T|SEC31A_uc011ccn.1_Missense_Mutation_p.I504T|SEC31A_uc003hnk.2_Intron|SEC31A_uc003hnm.2_Missense_Mutation_p.I504T|SEC31A_uc003hnn.1_Missense_Mutation_p.I504T	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	504					COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				GGCCAAAGCAATCTGAAATAA	0.393													6	49					0	0	0.001984	0	0	
WDFY3	23001	broad.mit.edu	37	4	85781643	85781643	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:85781643C>G	uc003hpd.2	-	4	510	c.102G>C	c.(100-102)GAG>GAC	p.E34D	WDFY3_uc003hpf.2_Missense_Mutation_p.E34D	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	34						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		GATGGCACAACTCCGTGAAGA	0.552													17	73					0	0	0.004990	0	0	
INTS12	57117	broad.mit.edu	37	4	106616707	106616707	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:106616707A>C	uc003hxw.2	-	4	533	c.275T>G	c.(274-276)GTA>GGA	p.V92G	INTS12_uc010ilr.2_Missense_Mutation_p.V92G	NM_020395	NP_065128	Q96CB8	INT12_HUMAN	integrator complex subunit 12	92					snRNA processing	integrator complex	protein binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(123;5.12e-07)		TTCCTTCTTTACCTTTTCAGT	0.323													15	48					0	0	0.003163	0	0	
INTU	27152	broad.mit.edu	37	4	128564847	128564847	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:128564847G>A	uc003ifk.1	+	2	388	c.318G>A	c.(316-318)AAG>AAA	p.K106K	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	106										ovary(1)	1						AAAGAAAAAAGTATGAACCCA	0.358													21	75					0	0	0.010504	0	0	
PCDH18	54510	broad.mit.edu	37	4	138451552	138451552	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:138451552A>C	uc003ihe.3	-	1	2078	c.1691T>G	c.(1690-1692)CTC>CGC	p.L564R	PCDH18_uc003ihf.3_Missense_Mutation_p.L557R|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.L344R|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	564	Extracellular (Potential).|Cadherin 5.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					AATGATGGTGAGCACAACTGT	0.453													39	149					0	0	0.004878	0	0	
ZNF827	152485	broad.mit.edu	37	4	146697023	146697023	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:146697023G>C	uc003ikn.2	-	10	2659	c.2611C>G	c.(2611-2613)CTG>GTG	p.L871V	ZNF827_uc003ikm.2_Missense_Mutation_p.L871V|ZNF827_uc010iox.2_Missense_Mutation_p.L521V|ZNF827_uc003ikl.2_5'UTR	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	871					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					GTACTCACCAGCTTCACGGAA	0.498													5	47					0	0	0.000602	0	0	
LRBA	987	broad.mit.edu	37	4	151849711	151849711	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:151849711A>T	uc010ipj.2	-	4	980	c.506T>A	c.(505-507)CTA>CAA	p.L169Q	LRBA_uc003ilu.3_Missense_Mutation_p.L169Q|LRBA_uc010ipk.1_Missense_Mutation_p.L88Q	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	169						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GAAAAGCTTTAGCTCGCGAAC	0.358													5	23					0	0	0.000602	0	0	
FHDC1	85462	broad.mit.edu	37	4	153896551	153896551	+	Missense_Mutation	SNP	C	T	T	rs147950044		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:153896551C>T	uc003inf.2	+	11	2183	c.2108C>T	c.(2107-2109)CCG>CTG	p.P703L		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	703					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					GACTTCAGCCCGATGGAGCTA	0.622													9	36					0	0	0.004482	0	0	
PLRG1	5356	broad.mit.edu	37	4	155461762	155461762	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:155461762C>T	uc003iny.2	-	10	986	c.923G>A	c.(922-924)CGA>CAA	p.R308Q	PLRG1_uc003inz.2_Missense_Mutation_p.R299Q|PLRG1_uc011cil.1_Missense_Mutation_p.R147Q	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	308	WD 3.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				AGTTGAATCTCGACTACAGGT	0.398													5	51					0	0	0.000602	0	0	
ACCN5	51802	broad.mit.edu	37	4	156775402	156775402	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:156775402C>A	uc003ipe.1	-	3	459	c.412G>T	c.(412-414)GTC>TTC	p.V138F		NM_017419	NP_059115	Q9NY37	ACCN5_HUMAN	amiloride-sensitive cation channel 5,	138	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)		AGATGGAGGACTTTGGATACA	0.383													10	58					2.17888e-05	2.34841e-05	0.006214	1	0	
TDO2	6999	broad.mit.edu	37	4	156825181	156825181	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:156825181A>C	uc003ipf.1	+	2	111	c.47A>C	c.(46-48)AAA>ACA	p.K16T		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	16					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	TATACTTTTAAAAAACTCCCC	0.353													5	26					0	0	0.001168	0	0	
FAM198B	51313	broad.mit.edu	37	4	159092149	159092149	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:159092149G>A	uc003ipp.3	-	2	831	c.379C>T	c.(379-381)CCC>TCC	p.P127S	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Missense_Mutation_p.P127S|FAM198B_uc003ipr.3_Missense_Mutation_p.P127S|FAM198B_uc003ips.2_Missense_Mutation_p.P127S|uc003ipt.1_RNA	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	127	Extracellular (Potential).					Golgi membrane|integral to membrane					0						CTGCGCTTGGGCTTCACGGTG	0.612													25	64					0	0	0.004656	0	0	
TLL1	7092	broad.mit.edu	37	4	166915670	166915670	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr4:166915670G>A	uc003irh.1	+	4	1146	c.499G>A	c.(499-501)GGA>AGA	p.G167R	TLL1_uc011cjn.1_Missense_Mutation_p.G167R|TLL1_uc011cjo.1_5'UTR	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	167	Metalloprotease (By similarity).				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		TTATGTTATAGGAGGAAACTT	0.358													11	49					0	0	0.000978	0	0	
TRIP13	9319	broad.mit.edu	37	5	914598	914598	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:914598C>T	uc003jbr.2	+	11	1149	c.1039C>T	c.(1039-1041)CGC>TGC	p.R347C		NM_004237	NP_004228	Q15645	PCH2_HUMAN	thyroid hormone receptor interactor 13	347					double-strand break repair|reciprocal meiotic recombination|synaptonemal complex assembly|transcription from RNA polymerase II promoter		ATP binding|identical protein binding|nucleoside-triphosphatase activity|transcription cofactor activity				0			Epithelial(17;0.00147)|OV - Ovarian serous cystadenocarcinoma(19;0.00271)|all cancers(22;0.00622)|Lung(60;0.165)			CATATACCCTCGCCAGCAGCT	0.512													25	181					0	0	0.004656	0	0	
SRD5A1	6715	broad.mit.edu	37	5	6633932	6633932	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:6633932C>G	uc003jdw.2	+	1	433	c.243C>G	c.(241-243)AGC>AGG	p.S81R	NSUN2_uc003jdu.2_5'Flank|NSUN2_uc011cmk.1_5'Flank|NSUN2_uc003jdv.2_5'Flank|SRD5A1_uc011cml.1_RNA|SRD5A1_uc011cmm.1_Missense_Mutation_p.A90G	NM_001047	NP_001038	P18405	S5A1_HUMAN	steroid-5-alpha-reductase 1	81					androgen biosynthetic process|cell differentiation|sex determination|sex differentiation	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|electron carrier activity				0					Dutasteride(DB01126)|Finasteride(DB01216)	GTCTCCGCAGCGCGCCCAACT	0.736													7	43					0	0	0.001984	0	0	
PAPD7	11044	broad.mit.edu	37	5	6753132	6753132	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:6753132C>T	uc003jdx.1	+	12	1545	c.1416C>T	c.(1414-1416)AGC>AGT	p.S472S	PAPD7_uc011cmn.1_Silent_p.S463S|PAPD7_uc010itl.1_Silent_p.S292S	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	472					cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						CGCTCTCGAGCCCTCATCTGT	0.537													13	101					0	0	0.001368	0	0	
DNAH5	1767	broad.mit.edu	37	5	13752383	13752383	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:13752383G>C	uc003jfd.2	-	64	10930	c.10888C>G	c.(10888-10890)CAC>GAC	p.H3630D	DNAH5_uc003jfc.2_Translation_Start_Site	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3630	AAA 5 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AAGTACTTGTGATTTAAAGAC	0.413									Kartagener_syndrome				14	96					0	0	0.002450	0	0	
DNAH5	1767	broad.mit.edu	37	5	13919307	13919307	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:13919307G>A	uc003jfd.2	-	7	995	c.953C>T	c.(952-954)GCG>GTG	p.A318V	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	318	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CGACTTGGCCGCCGCAAGCAC	0.458									Kartagener_syndrome				6	96					0	0	0.001168	0	0	
TRIO	7204	broad.mit.edu	37	5	14369554	14369554	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:14369554G>T	uc003jff.2	+	18	3144	c.3138G>T	c.(3136-3138)AAG>AAT	p.K1046N	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.K997N|TRIO_uc003jfh.1_Missense_Mutation_p.K695N	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1046					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GGGCGGATAAGCTGGGCCCAA	0.587													9	59					0.000274275	0.000290429	0.004482	1	0	
PRDM9	56979	broad.mit.edu	37	5	23524462	23524462	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:23524462G>A	uc003jgo.2	+	10	1152	c.970G>A	c.(970-972)GAT>AAT	p.D324N		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	324	SET.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						CTGTGCCCGGGATGATGAAGA	0.537										HNSCC(3;0.000094)			10	67					0	0	0.008291	0	0	
RAD1	5810	broad.mit.edu	37	5	34914837	34914837	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:34914837T>C	uc003jix.2	-	2	490	c.161A>G	c.(160-162)GAA>GGA	p.E54G	RAD1_uc003jiw.2_5'UTR|RAD1_uc003jiy.2_Missense_Mutation_p.E54G|BRIX1_uc003jiz.2_5'Flank|BRIX1_uc011col.1_5'Flank|BRIX1_uc003jja.2_5'Flank	NM_002853	NP_002844	O60671	RAD1_HUMAN	RAD1 homolog	54					DNA damage checkpoint|DNA repair|DNA replication|meiotic prophase I	nucleoplasm	3'-5' exonuclease activity|damaged DNA binding|exodeoxyribonuclease III activity|protein binding				0	all_lung(31;0.000107)	Lung NSC(810;5.19e-05)|Ovarian(839;0.0448)|Breast(839;0.198)	COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)			CTTTGCATTTTCCACTGTTAC	0.383								Other_conserved_DNA_damage_response_genes					17	82					0	0	0.007413	0	0	
SPEF2	79925	broad.mit.edu	37	5	35700701	35700701	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:35700701A>G	uc003jjo.2	+	16	2356	c.2245A>G	c.(2245-2247)ACA>GCA	p.T749A	SPEF2_uc003jjq.3_Missense_Mutation_p.T744A|SPEF2_uc003jjp.1_Missense_Mutation_p.T235A	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	749	Potential.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TAGAAACCTCACAGAAGTGGA	0.403													5	44					0	0	0.001168	0	0	
IL6ST	3572	broad.mit.edu	37	5	55260015	55260015	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:55260015T>G	uc003jqq.2	-	6	872	c.617A>C	c.(616-618)AAG>ACG	p.K206T	IL6ST_uc010iwb.2_Missense_Mutation_p.K206T|IL6ST_uc010iwc.2_Intron|IL6ST_uc010iwd.2_Intron|IL6ST_uc011cqk.1_5'UTR|IL6ST_uc003jqr.2_Missense_Mutation_p.K206T|IL6ST_uc010iwf.1_RNA	NM_002184	NP_002175	P40189	IL6RB_HUMAN	interleukin 6 signal transducer isoform 1	206	Extracellular (Potential).|Fibronectin type-III 1.				interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)				TGATGTAACCTTCCCAAGGGC	0.363			O		hepatocellular ca								5	66					0	0	0.001168	0	0	
RNF180	285671	broad.mit.edu	37	5	63510031	63510031	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:63510031A>G	uc003jti.2	+	4	988	c.878A>G	c.(877-879)CAA>CGA	p.Q293R	RNF180_uc003jth.3_Missense_Mutation_p.Q293R|RNF180_uc010iws.2_Intron	NM_001113561	NP_001107033	Q86T96	RN180_HUMAN	ring finger protein 180 isoform 1	293	Interaction with ZIC2 (By similarity).|Cytoplasmic (Potential).					integral to membrane|nuclear envelope	zinc ion binding				0		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0848)|Colorectal(97;0.234)		Lung(70;0.114)		ATGCTGCTGCAAAGATTTTCA	0.423													8	78					0	0	0.003080	0	0	
IQGAP2	10788	broad.mit.edu	37	5	75886244	75886244	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:75886244G>T	uc003kek.2	+	8	874	c.652G>T	c.(652-654)GTT>TTT	p.V218F		NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	218					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		ACATGCTGCAGTTATAGCCAT	0.378													8	62					1.06961e-07	1.18768e-07	0.003080	1	0	
RHOBTB3	22836	broad.mit.edu	37	5	95119546	95119546	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:95119546A>G	uc003klm.2	+	10	2039	c.1502A>G	c.(1501-1503)TAC>TGC	p.Y501C		NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	501	Interaction with Rab9.				retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)		GCCGAGATGTACCAAGTGTCC	0.468													25	124					0	0	0.004656	0	0	
CHSY3	337876	broad.mit.edu	37	5	129520970	129520970	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:129520970C>T	uc003kvd.2	+	3	2135	c.2135C>T	c.(2134-2136)ACT>ATT	p.T712I		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	712	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		GACAATGACACTTTGCTGCTA	0.428													13	65					0	0	0.001368	0	0	
TGFBI	7045	broad.mit.edu	37	5	135383090	135383090	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:135383090A>G	uc003lbf.3	+	6	913	c.752A>G	c.(751-753)GAC>GGC	p.D251G	TGFBI_uc003lbg.3_5'UTR|TGFBI_uc003lbh.3_Missense_Mutation_p.D77G|TGFBI_uc011cyb.1_Missense_Mutation_p.D77G|TGFBI_uc010jed.2_5'Flank	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	251	FAS1 2.				angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GAGATCGAGGACACCTTTGAG	0.572													13	199					0	0	0.002450	0	0	
EGR1	1958	broad.mit.edu	37	5	137802687	137802687	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:137802687C>T	uc003ldb.1	+	2	819	c.549C>T	c.(547-549)TCC>TCT	p.S183S	EGR1_uc011cyu.1_Intron	NM_001964	NP_001955	P18146	EGR1_HUMAN	early growth response 1	183					cellular response to heparin|cellular response to mycophenolic acid|glomerular mesangial cell proliferation|interleukin-1-mediated signaling pathway|positive regulation of glomerular metanephric mesangial cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of protein sumoylation|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytoplasm|nucleus	histone acetyltransferase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CCTCCGCCTCCGCCTCCCAGA	0.647													30	134					0	0	0.008361	0	0	
HSPA9	3313	broad.mit.edu	37	5	137894317	137894317	+	Silent	SNP	C	T	T	rs149852902		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:137894317C>T	uc003ldf.2	-	12	1548	c.1440G>A	c.(1438-1440)ACG>ACA	p.T480T	HSPA9_uc003lde.2_5'Flank|HSPA9_uc011cyw.1_Silent_p.T411T	NM_004134	NP_004125	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 precursor	480					anti-apoptosis|protein folding	cell surface|mitochondrial nucleoid	ATP binding|unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TTTCCACTTGCGTTTGACCAT	0.413													10	77					0	0	0.006214	0	0	
PCDHA12	56137	broad.mit.edu	37	5	140256667	140256667	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140256667C>T	uc003lic.2	+	1	1737	c.1610C>T	c.(1609-1611)GCG>GTG	p.A537V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.A537V	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	537	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGTGAGCGCGCGCGACGCC	0.687													27	103					0	0	0.005443	0	0	
PCDHAC1	56135	broad.mit.edu	37	5	140307999	140307999	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140307999A>G	uc003lih.2	+	1	1698	c.1522A>G	c.(1522-1524)ACT>GCT	p.T508A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.T508A	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	508	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGGCCATCACTGCCAAAAC	0.512													19	81					0	0	0.007413	0	0	
PCDHB1	29930	broad.mit.edu	37	5	140433387	140433387	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140433387T>A	uc003lik.1	+	1	2409	c.2332T>A	c.(2332-2334)TTC>ATC	p.F778I		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	778	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TATGCCCAACTTCCCTTTCCC	0.468													47	67					0	0	0.003610	0	0	
PCDHB2	56133	broad.mit.edu	37	5	140475743	140475743	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140475743T>C	uc003lil.2	+	1	1507	c.1369T>C	c.(1369-1371)TCC>CCC	p.S457P	PCDHB2_uc003lim.1_Missense_Mutation_p.S118P	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	457	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACCCAAACCTCCTACACCCT	0.622													28	169					0	0	0.006320	0	0	
PCDHB6	56130	broad.mit.edu	37	5	140531705	140531705	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140531705C>T	uc003lir.2	+	1	1867	c.1867C>T	c.(1867-1869)CGC>TGC	p.R623C	PCDHB6_uc011dah.1_Missense_Mutation_p.R487C	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	623	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGCGAGGTGCGCACCGCCAG	0.687													12	55					0	0	0.001855	0	0	
PCDHB8	56128	broad.mit.edu	37	5	140559252	140559252	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140559252C>T	uc011dai.1	+	1	1823	c.1637C>T	c.(1636-1638)GCG>GTG	p.A546V	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	546	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCAGCGAGGCGCTGGTGCGC	0.697													10	61					0	0	0.008291	0	0	
PCDHB13	56123	broad.mit.edu	37	5	140594824	140594824	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140594824G>T	uc003lja.1	+	1	1316	c.1129G>T	c.(1129-1131)GGA>TGA	p.G377*		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	377	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCTTGATTCAGGAGAAAATGG	0.463													17	151					4.14922e-12	4.78974e-12	0.004007	1	0	
PCDHB15	56121	broad.mit.edu	37	5	140625761	140625761	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140625761G>T	uc003lje.2	+	1	615	c.615G>T	c.(613-615)CAG>CAT	p.Q205H		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	205	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCGAGGAGCAGGCCGAGCTCA	0.562													8	42					0.00307968	0.0032009	0.003080	1	0	
PCDHGB3	56102	broad.mit.edu	37	5	140751508	140751508	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140751508C>T	uc003ljw.1	+	1	1547	c.1547C>T	c.(1546-1548)GCG>GTG	p.A516V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.A516V|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	516	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGTGTTCGCGCAGCGAGCC	0.677													7	51					0	0	0.001984	0	0	
PCDHGA6	56109	broad.mit.edu	37	5	140754789	140754789	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140754789G>C	uc003ljy.1	+	1	1139	c.1139G>C	c.(1138-1140)GGC>GCC	p.G380A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.G380A	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	380	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCCTGAATGGCCTGGTAACC	0.453													20	60					0	0	0.008871	0	0	
PCDHGA8	9708	broad.mit.edu	37	5	140772926	140772926	+	Silent	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140772926G>T	uc003lkd.1	+	1	1444	c.546G>T	c.(544-546)GTG>GTT	p.V182V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Silent_p.V182V	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	182	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTGGACGTGCAGACTGGAG	0.617													8	55					0.00307968	0.0032009	0.003080	1	0	
PCDHGB7	56099	broad.mit.edu	37	5	140798806	140798806	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140798806C>T	uc003lkn.1	+	1	1525	c.1380C>T	c.(1378-1380)CAC>CAT	p.H460H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Silent_p.H460H|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	460	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCTGGTCCACGTGCCAGAAA	0.572													14	50					0	0	0.002450	0	0	
DIAPH1	1729	broad.mit.edu	37	5	140906001	140906001	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140906001A>G	uc003llb.3	-	26	3442	c.3301T>C	c.(3301-3303)TAT>CAT	p.Y1101H	DIAPH1_uc011dbd.1_5'UTR|DIAPH1_uc003llc.3_Missense_Mutation_p.Y1092H	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	1101	Potential.|FH2.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTTGTTATACTGTTCCTGT	0.408													14	44					0	0	0.003163	0	0	
DIAPH1	1729	broad.mit.edu	37	5	140908386	140908386	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:140908386T>G	uc003llb.3	-	23	3042	c.2901A>C	c.(2899-2901)TTA>TTC	p.L967F	DIAPH1_uc011dbd.1_5'Flank|DIAPH1_uc003llc.3_Missense_Mutation_p.L958F|DIAPH1_uc010jgc.1_Missense_Mutation_p.L403F	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	967	FH2.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACTCTTACGTAACTCCTCAC	0.453													14	47					0	0	0.002450	0	0	
PCDH12	51294	broad.mit.edu	37	5	141329002	141329002	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:141329002C>T	uc003llx.2	-	3	4336	c.3125G>A	c.(3124-3126)AGC>AAC	p.S1042N		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	1042	Cytoplasmic (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTACCTGTGCTGGGGTCCAG	0.552													35	142					0	0	0.004289	0	0	
HTR4	3360	broad.mit.edu	37	5	147889351	147889351	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:147889351A>G	uc003lpn.2	-	6	908	c.744T>C	c.(742-744)ACT>ACC	p.T248T	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Silent_p.T248T|HTR4_uc003lpj.1_Silent_p.T248T|HTR4_uc003lpk.2_Silent_p.T248T|HTR4_uc011dby.1_Silent_p.T248T|HTR4_uc003lpl.2_Silent_p.T262T|HTR4_uc003lpm.2_Silent_p.T248T|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Silent_p.T248T	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	248	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	TCATGCGATGAGTGCTATGCT	0.542													6	38					0	0	0.001984	0	0	
ODZ2	57451	broad.mit.edu	37	5	167489185	167489185	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:167489185A>G	uc010jjd.2	+	7	1430	c.1430A>G	c.(1429-1431)CAG>CGG	p.Q477R	ODZ2_uc003lzq.2_Missense_Mutation_p.Q356R|ODZ2_uc003lzr.3_Missense_Mutation_p.Q245R	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		AGTCAGCCCCAGTTCTTAAAG	0.493													22	61					0	0	0.001882	0	0	
DOCK2	1794	broad.mit.edu	37	5	169461447	169461447	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:169461447T>G	uc003maf.2	+	35	3592	c.3512T>G	c.(3511-3513)GTG>GGG	p.V1171G	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.V663G	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1171	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCCAAGTCGGTGGAGAACTTC	0.572													10	45					0	0	0.006214	0	0	
DOCK2	1794	broad.mit.edu	37	5	169506041	169506041	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:169506041C>T	uc003maf.2	+	49	5137	c.5057C>T	c.(5056-5058)CCG>CTG	p.P1686L	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.P1178L|DOCK2_uc003mah.2_Missense_Mutation_p.P242L	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1686					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCGATCTCCCCGGGGAGCACC	0.557													18	76					0	0	0.004990	0	0	
NKX2-5	1482	broad.mit.edu	37	5	172660043	172660043	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:172660043G>A	uc003mcm.1	-	2	680	c.504C>T	c.(502-504)CGC>CGT	p.R168R	NKX2-5_uc011dfe.1_3'UTR|NKX2-5_uc010jjt.1_3'UTR	NM_004387	NP_004378	P52952	NKX25_HUMAN	NK2 transcription factor related, locus 5	168	Homeobox.				adult heart development|atrial cardiac muscle cell development|atrial septum morphogenesis|heart looping|hemopoiesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell apoptosis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|outflow tract septum morphogenesis|pharyngeal system development|positive regulation of calcium ion transport via voltage-gated calcium channel activity|positive regulation of cardioblast differentiation|positive regulation of cell proliferation|positive regulation of heart contraction|positive regulation of neuron differentiation|positive regulation of sodium ion transport|positive regulation of survival gene product expression|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of cardiac muscle contraction|right ventricular cardiac muscle tissue morphogenesis|septum secundum development|spleen development|thyroid gland development|vasculogenesis|ventricular septum morphogenesis		chromatin binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CCAGCTGGTCGCGTTCGGGGG	0.662													3	6					0	0	0.004672	0	0	
RREB1	6239	broad.mit.edu	37	6	7226887	7226887	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:7226887C>G	uc003mxc.2	+	9	1285	c.895C>G	c.(895-897)CAG>GAG	p.Q299E	RREB1_uc003mxb.2_Missense_Mutation_p.Q299E|RREB1_uc010jnx.2_Missense_Mutation_p.Q299E	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	299					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				TCGCATTTCTCAGGTATTCTG	0.483													8	109					0	0	0.003080	0	0	
SNRNP48	154007	broad.mit.edu	37	6	7601644	7601644	+	Missense_Mutation	SNP	G	A	A	rs143226311		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:7601644G>A	uc003mxr.2	+	5	541	c.482G>A	c.(481-483)CGT>CAT	p.R161H	SNRNP48_uc003mxs.2_RNA	NM_152551	NP_689764	Q6IEG0	SNR48_HUMAN	U11/U12 snRNP 48K	161					mRNA processing	cytoplasm|U12-type spliceosomal complex	metal ion binding				0						CAAGCTGATCGTCTTGCCCTC	0.368													7	108					0	0	0.001984	0	0	
NEDD9	4739	broad.mit.edu	37	6	11190485	11190485	+	Silent	SNP	G	A	A	rs146690144		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:11190485G>A	uc003mzv.2	-	5	1784	c.1617C>T	c.(1615-1617)CCC>CCT	p.P539P	NEDD9_uc010joz.2_Silent_p.P539P|NEDD9_uc003mzw.3_Silent_p.P393P	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	539					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			TGGCGTCATCGGGCACCGTCT	0.562													22	107					0	0	0.003330	0	0	
JARID2	3720	broad.mit.edu	37	6	15501398	15501398	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:15501398C>A	uc003nbj.2	+	8	2450	c.2206C>A	c.(2206-2208)CCG>ACG	p.P736T	JARID2_uc011div.1_Missense_Mutation_p.P564T|JARID2_uc011diw.1_Missense_Mutation_p.P698T	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	736					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				GCGCAAGGGGCCGCTGGAAGG	0.637													22	161					5.35356e-11	6.11318e-11	0.002780	1	0	
ATXN1	6310	broad.mit.edu	37	6	16327921	16327921	+	Missense_Mutation	SNP	C	A	A	rs142039862	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:16327921C>A	uc003nbt.2	-	8	1592	c.621G>T	c.(619-621)CAG>CAT	p.Q207H	ATXN1_uc010jpi.2_Missense_Mutation_p.Q207H|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	207	Poly-Gln.				cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				gctgatgctgctgctgctgct	0.373													3	15					0.00909568	0.00933882	0.009096	1	0	
HIST1H2AH	85235	broad.mit.edu	37	6	27114929	27114929	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:27114929G>T	uc003niz.2	+	1	22	c.22G>T	c.(22-24)GGC>TGC	p.G8C	HIST1H2BK_uc003nix.1_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080596	NP_542163	Q96KK5	H2A1H_HUMAN	histone cluster 1, H2ah	8					nucleosome assembly	nucleosome|nucleus	DNA binding				0						TGGCAAGCAAGGCGGTAAAGC	0.557													16	54					6.94344e-10	7.86489e-10	0.006122	1	0	
DDR1	780	broad.mit.edu	37	6	30865334	30865334	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:30865334G>C	uc003nrr.2	+	16	2435	c.2176G>C	c.(2176-2178)GCC>CCC	p.A726P	DDR1_uc010jse.2_Missense_Mutation_p.A689P|DDR1_uc003nrq.2_Missense_Mutation_p.A689P|DDR1_uc003nrs.2_Missense_Mutation_p.A726P|DDR1_uc003nrt.2_Missense_Mutation_p.A689P|DDR1_uc011dms.1_Missense_Mutation_p.A707P|DDR1_uc003nru.2_Missense_Mutation_p.A689P|DDR1_uc003nrv.2_Missense_Mutation_p.A732P|DDR1_uc003nrw.1_Missense_Mutation_p.A461P|DDR1_uc003nrz.1_Missense_Mutation_p.A51P	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	726	Cytoplasmic (Potential).|Protein kinase.				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	AGCCGAGGGGGCCCCTGGGGA	0.647													5	29					0	0	0.000602	0	0	
DPCR1	135656	broad.mit.edu	37	6	30919972	30919972	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:30919972C>A	uc003nsg.2	+	2	3731	c.3731C>A	c.(3730-3732)CCT>CAT	p.P1244H		NM_080870	NP_543146	Q3MIW9	DPCR1_HUMAN	diffuse panbronchiolitis critical region 1	368	Extracellular (Potential).|Thr-rich.					integral to membrane					0						ACTATAAAACCTTCAGTCAAG	0.443													16	81					6.31663e-08	7.03234e-08	0.003163	1	0	
BAT5	7920	broad.mit.edu	37	6	31655315	31655315	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:31655315T>G	uc003nvy.1	-	19	1583	c.1553A>C	c.(1552-1554)GAC>GCC	p.D518A	BAT5_uc003nvx.1_Missense_Mutation_p.D299A|BAT5_uc011dny.1_Missense_Mutation_p.D485A|BAT5_uc003nvz.1_Missense_Mutation_p.D299A|BAT5_uc011dnz.1_Missense_Mutation_p.D299A	NM_021160	NP_066983	O95870	ABHGA_HUMAN	HLA-B associated transcript 5	518						integral to membrane	hydrolase activity|protein binding				0						TGCACTCATGTCCTCCCCTGC	0.587													24	111					0	0	0.003330	0	0	
TAP1	6890	broad.mit.edu	37	6	32821354	32821354	+	Silent	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:32821354G>C	uc003ocg.2	-	1	395	c.240C>G	c.(238-240)CTC>CTG	p.L80L	TAP1_uc011dqi.1_5'Flank|PSMB9_uc011dqj.1_5'Flank|PSMB9_uc003sga.2_5'Flank	NM_000593	NP_000584	Q03518	TAP1_HUMAN	transporter 1, ATP-binding cassette, sub-family	80	Helical; Name=1; (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|cytosol to ER transport|intracellular transport of viral proteins in host cell|positive regulation of T cell mediated cytotoxicity	cytosol|plasma membrane|TAP complex	ADP binding|ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding			skin(1)	1						CCAGCCATGCGAGAGAAGCTC	0.711													9	22					0	0	0.004482	0	0	
MDGA1	266727	broad.mit.edu	37	6	37619916	37619916	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:37619916C>T	uc003onu.1	-	7	2362	c.1183G>A	c.(1183-1185)GCA>ACA	p.A395T	MDGA1_uc003onw.3_RNA	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	395	Ig-like 4.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						CTGGTGACTGCGGGCAGCTCA	0.602													11	56					0	0	0.008291	0	0	
PGC	5225	broad.mit.edu	37	6	41705491	41705491	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:41705491G>C	uc003ora.1	-	8	1040	c.991C>G	c.(991-993)CCA>GCA	p.P331A	TFEB_uc003oqs.1_5'Flank|TFEB_uc003oqt.1_5'Flank|TFEB_uc003oqu.1_5'Flank|TFEB_uc010jxq.1_5'Flank	NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor	331					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GAGGAAGGTGGCAGAGGGAAC	0.532													4	44					0	0	0.009096	0	0	
TRERF1	55809	broad.mit.edu	37	6	42227283	42227283	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:42227283C>T	uc003osd.2	-	9	2626	c.2063G>A	c.(2062-2064)CGC>CAC	p.R688H	TRERF1_uc011duq.1_Missense_Mutation_p.R605H|TRERF1_uc003osb.2_Missense_Mutation_p.R444H|TRERF1_uc003osc.2_Missense_Mutation_p.R444H|TRERF1_uc003ose.2_Missense_Mutation_p.R708H	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	688	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCGCGGGGAGCGCAGCTGGCT	0.731													14	29					0	0	0.003163	0	0	
CUL7	9820	broad.mit.edu	37	6	43013029	43013029	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:43013029G>A	uc003otq.2	-	15	3277	c.2974C>T	c.(2974-2976)CGG>TGG	p.R992W	CUL7_uc010jyg.2_Missense_Mutation_p.R271W|CUL7_uc011dvb.1_Missense_Mutation_p.R1076W|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	992	DOC.				interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GCCTGTGCCCGAACCATGTAG	0.602													5	55					0	0	0.001168	0	0	
ABCC10	89845	broad.mit.edu	37	6	43415496	43415496	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:43415496G>A	uc003ouy.1	+	18	3995	c.3780G>A	c.(3778-3780)CCG>CCA	p.P1260P	ABCC10_uc003ouz.1_Silent_p.P1232P|ABCC10_uc010jyo.1_Silent_p.P366P	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	1260	ABC transporter 2.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CAGGGCTGCCGAATGCCCTGG	0.657													34	228					0	0	0.003271	0	0	
PKHD1	5314	broad.mit.edu	37	6	51907739	51907739	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:51907739G>A	uc003pah.1	-	27	3291	c.3015C>T	c.(3013-3015)GCC>GCT	p.A1005A	PKHD1_uc003pai.2_Silent_p.A1005A	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1005	IPT/TIG 4.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGGCACTGATGGCAAGACCAG	0.473													19	96					0	0	0.010504	0	0	
MCM3	4172	broad.mit.edu	37	6	52133966	52133966	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:52133966G>A	uc003pan.1	-	13	1996	c.1886C>T	c.(1885-1887)GCG>GTG	p.A629V	MCM3_uc011dwu.1_Missense_Mutation_p.A583V	NM_002388	NP_002379	P25205	MCM3_HUMAN	minichromosome maintenance complex component 3	629					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	alpha DNA polymerase:primase complex|centrosome|MCM complex|perinuclear region of cytoplasm	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)|lung(1)|skin(1)	3	Lung NSC(77;0.0931)					GCGGGCCTTCGCATGGGCTGT	0.507													16	47					0	0	0.003163	0	0	
EFHC1	114327	broad.mit.edu	37	6	52329713	52329713	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:52329713C>T	uc003pap.3	+	6	1152	c.937C>T	c.(937-939)CTA>TTA	p.L313L	EFHC1_uc011dwv.1_Silent_p.L222L|EFHC1_uc011dww.1_Silent_p.L294L	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	313	DM10 2.					axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					TCAGTGTGTGCTAGAAATCTC	0.393													6	48					0	0	0.001168	0	0	
FAM83B	222584	broad.mit.edu	37	6	54805046	54805046	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:54805046C>T	uc003pck.2	+	5	1393	c.1277C>T	c.(1276-1278)GCG>GTG	p.A426V		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	426										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					CTCAGTGTGGCGTCCTCATCA	0.483													17	63					0	0	0.004007	0	0	
COL21A1	81578	broad.mit.edu	37	6	56006611	56006611	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:56006611T>C	uc003pcs.2	-	12	1746	c.1514A>G	c.(1513-1515)AAA>AGA	p.K505R	COL21A1_uc003pct.1_RNA|COL21A1_uc011dxi.1_Missense_Mutation_p.K505R|COL21A1_uc003pcu.1_Missense_Mutation_p.K502R	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	505	Collagen-like 1.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			TGGTTCTCCTTTGTAACCTGG	0.338													10	47					0	0	0.001368	0	0	
BAI3	577	broad.mit.edu	37	6	69665963	69665963	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:69665963A>C	uc003pev.3	+	7	1691	c.1243A>C	c.(1243-1245)ACG>CCG	p.T415P	BAI3_uc010kak.2_Missense_Mutation_p.T415P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	415	TSP type-1 3.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				GTGCTCAGTAACGTGCTCGAA	0.537													6	29					0	0	0.001168	0	0	
EEF1A1	1915	broad.mit.edu	37	6	74228300	74228300	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:74228300G>C	uc003phi.2	-	5	843	c.806C>G	c.(805-807)ACT>AGT	p.T269S	EEF1A1_uc003phd.2_5'UTR|EEF1A1_uc003phe.2_Missense_Mutation_p.T259S|EEF1A1_uc003phf.2_Missense_Mutation_p.T269S|EEF1A1_uc003phg.2_Missense_Mutation_p.T269S|EEF1A1_uc003phh.2_Missense_Mutation_p.T115S|EEF1A1_uc003phj.2_Missense_Mutation_p.T269S|EEF1A1_uc003phk.2_Missense_Mutation_p.T269S|EEF1A1_uc003phl.2_Intron|EEF1A1_uc003phm.1_Intron	NM_001402	NP_001393	P68104	EF1A1_HUMAN	eukaryotic translation elongation factor 1 alpha	269						cytosol|eukaryotic translation elongation factor 1 complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0						GAGAACACCAGTCTCCACTCG	0.423											OREG0003895	type=REGULATORY REGION|Gene=D16891|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	17	65					0	0	0.001882	0	0	
MDN1	23195	broad.mit.edu	37	6	90422432	90422432	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:90422432C>T	uc003pnn.1	-	48	7408	c.7292G>A	c.(7291-7293)GGC>GAC	p.G2431D		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2431					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CAGTCCCATGCCAAGAATGGA	0.458													7	62					0	0	0.001984	0	0	
SIM1	6492	broad.mit.edu	37	6	100838323	100838323	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:100838323A>T	uc003pqj.3	-	11	2422	c.2215T>A	c.(2215-2217)TTT>ATT	p.F739I	SIM1_uc010kcu.2_Missense_Mutation_p.F739I	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	739	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		GTTACATCAAAGTGTGAGCCA	0.423													14	77					0	0	0.001855	0	0	
MICAL1	64780	broad.mit.edu	37	6	109770982	109770982	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:109770982T>G	uc003ptj.2	-	9	1566	c.1312A>C	c.(1312-1314)AGC>CGC	p.S438R	MICAL1_uc003ptk.2_Missense_Mutation_p.S438R|MICAL1_uc010kdr.2_Missense_Mutation_p.S352R|MICAL1_uc011eaq.1_Missense_Mutation_p.S457R	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin	438					cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		TGGTACAGGCTCTCACTGAGG	0.587													10	43					0	0	0.006214	0	0	
TBPL1	9519	broad.mit.edu	37	6	134305583	134305583	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:134305583C>A	uc010kgg.2	+	5	912	c.352C>A	c.(352-354)CCA>ACA	p.P118T	TBPL1_uc003qel.2_Missense_Mutation_p.P118T	NM_004865	NP_004856	P62380	TBPL1_HUMAN	TBP-like 1	118					regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	cytoplasm	DNA binding|protein binding|transcription coactivator activity				0	Colorectal(23;0.221)|Breast(56;0.247)			GBM - Glioblastoma multiforme(68;0.00591)|OV - Ovarian serous cystadenocarcinoma(155;0.00848)		AATCCGTTTGCCAGAATTCAC	0.318													7	36					8.12818e-05	8.67212e-05	0.001984	1	0	
PEX7	5191	broad.mit.edu	37	6	137187777	137187777	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:137187777T>C	uc003qhd.2	+	6	641	c.539T>C	c.(538-540)CTG>CCG	p.L180P	PEX7_uc010kgx.2_RNA	NM_000288	NP_000279	O00628	PEX7_HUMAN	peroxisomal biogenesis factor 7	180	WD 3.				ether lipid biosynthetic process|protein import into peroxisome matrix	peroxisome	peroxisome matrix targeting signal-2 binding				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000257)|OV - Ovarian serous cystadenocarcinoma(155;0.00492)		GATCAGACTCTGAGAATATGG	0.393													7	40					0	0	0.001984	0	0	
VTA1	51534	broad.mit.edu	37	6	142468427	142468427	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:142468427G>A	uc003qiw.2	+	1	18	c.3G>A	c.(1-3)ATG>ATA	p.M1I	VTA1_uc011edt.1_RNA|VTA1_uc011edu.1_5'UTR	NM_016485	NP_057569	Q9NP79	VTA1_HUMAN	Vps20-associated 1 homolog	1					cellular membrane organization|endosome transport|protein transport	cytosol|endosome membrane	protein binding				0	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;1.34e-05)|GBM - Glioblastoma multiforme(68;0.00182)		GAGTAGAGATGGCCGCGCTTG	0.632											OREG0017699	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	22					0	0	0.003080	0	0	
SYNE1	23345	broad.mit.edu	37	6	152639292	152639292	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:152639292T>A	uc010kiw.2	-	86	17098	c.16496A>T	c.(16495-16497)AAG>ATG	p.K5499M	SYNE1_uc010kiv.2_Missense_Mutation_p.K23M|SYNE1_uc003qos.3_Missense_Mutation_p.K23M|SYNE1_uc003qot.3_Missense_Mutation_p.K5428M|SYNE1_uc003qou.3_Missense_Mutation_p.K5499M|SYNE1_uc010kiz.2_Missense_Mutation_p.K1254M	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5499	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCCTATCTTCTTGGCCAGTGG	0.453										HNSCC(10;0.0054)			15	96					0	0	0.002450	0	0	
IPCEF1	26034	broad.mit.edu	37	6	154489165	154489165	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:154489165G>A	uc003qpx.2	-	11	1147	c.991C>T	c.(991-993)CGA>TGA	p.R331*	OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Nonsense_Mutation_p.R202*|IPCEF1_uc003qpw.2_Nonsense_Mutation_p.R332*|IPCEF1_uc010kjh.2_Nonsense_Mutation_p.R332*	NM_015553	NP_056368	Q8WWN9	ICEF1_HUMAN	phosphoinositide-binding protein PIP3-E isoform	331					response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0						GAAGGTCGTCGGTCCCCAAGA	0.368													12	191					0	0	0.001368	0	0	
TFB1M	51106	broad.mit.edu	37	6	155632375	155632375	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:155632375C>T	uc003qqj.3	-	2	296	c.232G>A	c.(232-234)GTC>ATC	p.V78I	TFB1M_uc003qqk.2_Intron	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	78					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		AGTTCAGCGACGTCGGCATTA	0.433													15	69					0	0	0.002450	0	0	
TULP4	56995	broad.mit.edu	37	6	158922885	158922885	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:158922885T>C	uc003qrf.2	+	13	3547	c.2190T>C	c.(2188-2190)GCT>GCC	p.A730A	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	730					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		AGACGACAGCTGTAGGGACAG	0.567													24	145					0	0	0.002780	0	0	
EZR	7430	broad.mit.edu	37	6	159204595	159204595	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:159204595C>G	uc003qrt.3	-	6	870	c.655G>C	c.(655-657)GGA>CGA	p.G219R	EZR_uc011efs.1_Missense_Mutation_p.G187R|EZR_uc003qru.3_Missense_Mutation_p.G219R	NM_003379	NP_003370	P15311	EZRI_HUMAN	ezrin	219	FERM.				actin filament bundle assembly|axon guidance|cytoskeletal anchoring at plasma membrane|leukocyte cell-cell adhesion|membrane to membrane docking|regulation of cell shape	actin filament|apical plasma membrane|basolateral plasma membrane|cortical cytoskeleton|cytosol|extrinsic to membrane|filopodium|microvillus membrane|nucleolus|ruffle membrane	actin filament binding|cell adhesion molecule binding			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-17)|BRCA - Breast invasive adenocarcinoma(81;6.58e-06)		GCATCAACTCCAAGCCAAAGG	0.398													7	82					0	0	0.001984	0	0	
WTAP	9589	broad.mit.edu	37	6	160164762	160164762	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:160164762C>T	uc003qsl.2	+	5	433	c.211C>T	c.(211-213)CGC>TGC	p.R71C	WTAP_uc010kjx.2_Missense_Mutation_p.R71C|WTAP_uc003qsk.2_Missense_Mutation_p.R71C|WTAP_uc003qsm.1_RNA|WTAP_uc003qsn.2_Missense_Mutation_p.R71C	NM_004906	NP_004897	Q15007	FL2D_HUMAN	Wilms' tumour 1-associating protein isoform 1	71					cell cycle|mRNA processing|RNA splicing	nuclear membrane|nucleolus					0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.75e-18)|BRCA - Breast invasive adenocarcinoma(81;5.93e-06)		GGAGTCTGCACGCAGGGAAAA	0.353													7	46					0	0	0.003080	0	0	
MAP3K4	4216	broad.mit.edu	37	6	161494549	161494549	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:161494549T>C	uc003qtn.2	+	5	2144	c.2002T>C	c.(2002-2004)TAC>CAC	p.Y668H	MAP3K4_uc010kkc.1_Missense_Mutation_p.Y668H|MAP3K4_uc003qto.2_Missense_Mutation_p.Y668H|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.Y121H	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	668					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		GATGAAGCAGTACTACCAGTT	0.502													8	48					0	0	0.006214	0	0	
MAP3K4	4216	broad.mit.edu	37	6	161510388	161510388	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:161510388C>T	uc003qtn.2	+	11	3000	c.2858C>T	c.(2857-2859)GCG>GTG	p.A953V	MAP3K4_uc010kkc.1_Missense_Mutation_p.A953V|MAP3K4_uc003qto.2_Missense_Mutation_p.A953V|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.A406V|MAP3K4_uc003qtp.2_5'Flank	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	953					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		ATGCAGTCTGCGCATCTCACA	0.453													17	137					0	0	0.004990	0	0	
GPER	2852	broad.mit.edu	37	7	1131429	1131429	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:1131429C>T	uc010ksd.1	+	2	454	c.65C>T	c.(64-66)GCG>GTG	p.A22V	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPER_uc003sjz.1_Missense_Mutation_p.A22V|GPER_uc003ska.1_Missense_Mutation_p.A22V|GPER_uc003skb.2_Missense_Mutation_p.A22V	NM_001098201	NP_001091671	Q99527	GPER_HUMAN	G protein-coupled receptor 30	22	Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;2.32e-16)		GCGCAGCCTGCGGCCCCCAAC	0.652													7	64					0	0	0.003080	0	0	
SDK1	221935	broad.mit.edu	37	7	4088996	4088996	+	Silent	SNP	G	A	A	rs146784103		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:4088996G>A	uc003smx.2	+	18	2758	c.2619G>A	c.(2617-2619)CCG>CCA	p.P873P	SDK1_uc010kso.2_Silent_p.P149P	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	873	Fibronectin type-III 3.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CCGCGCCCCCGCAGAACGTGC	0.567													5	33					0	0	0.000602	0	0	
TNRC18	84629	broad.mit.edu	37	7	5348924	5348924	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:5348924C>T	uc003soi.3	-	28	8813	c.8464G>A	c.(8464-8466)GGG>AGG	p.G2822R		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2822	BAH.						DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GCACAGTCCCCGATACGGATC	0.637													3	21					0	0	0.009096	0	0	
SP8	221833	broad.mit.edu	37	7	20825340	20825340	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:20825340C>T	uc003suy.2	-	3	283	c.42G>A	c.(40-42)CCG>CCA	p.P14P	SP8_uc003suz.2_Silent_p.P32P	NM_198956	NP_945194	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor isoform 2	14	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						AGGAGGGAGACGGGCTGGGGC	0.597													5	47					0	0	0.001168	0	0	
STK31	56164	broad.mit.edu	37	7	23749937	23749937	+	Silent	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:23749937C>G	uc003sws.3	+	1	100	c.33C>G	c.(31-33)TCC>TCG	p.S11S	STK31_uc003swt.3_5'UTR|STK31_uc011jze.1_Silent_p.S11S|STK31_uc010kuq.2_5'Flank	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	11							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						CTAGAGCTTCCGCAACGGAAA	0.557													10	33					0	0	0.000978	0	0	
HOXA10	3206	broad.mit.edu	37	7	27213459	27213459	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:27213459G>C	uc011jzm.1	-	1	497	c.467C>G	c.(466-468)TCG>TGG	p.S156W	HOXA10_uc003syw.3_Intron	NM_018951	NP_061824	P31260	HXA10_HUMAN	homeobox A10 isoform a	156					spermatogenesis		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GAAAGAGCACGAGGTGGCCTG	0.512													3	16					0	0	0.001168	0	0	
Unknown	0	broad.mit.edu	37	7	29771601	29771601	+	Missense_Mutation	SNP	G	A	A	rs77356382	by1000genomes	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:29771601G>A	uc003tai.2	+	3	139	c.19G>A	c.(19-21)GTG>ATG	p.V7M						Homo sapiens DPY-19-like 2 pseudogene 3 (DPY19L2P3) pseudogene mRNA, complete sequence.																		AATGGCAAGCGTGAAGCTGTC	0.403													12	38					0	0	0.001368	0	0	
ELMO1	9844	broad.mit.edu	37	7	37264526	37264526	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:37264526G>A	uc003tfk.1	-	9	966	c.659C>T	c.(658-660)GCG>GTG	p.A220V	ELMO1_uc011kbc.1_Missense_Mutation_p.A124V|ELMO1_uc010kxg.1_Missense_Mutation_p.A220V	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	220					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						GATCTCCTGCGCCACTTTCTG	0.527													11	70					0	0	0.008291	0	0	
AMPH	273	broad.mit.edu	37	7	38424457	38424457	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:38424457C>A	uc003tgu.2	-	21	2119	c.2050G>T	c.(2050-2052)GGC>TGC	p.G684C	AMPH_uc003tgv.2_Missense_Mutation_p.G642C|AMPH_uc003tgt.2_Missense_Mutation_p.G569C	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	684	SH3.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						GGAAAGAGGCCTTTGTAGGTG	0.483													12	94					1.5842e-08	1.77775e-08	0.001855	1	0	
AMPH	273	broad.mit.edu	37	7	38475965	38475965	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:38475965T>A	uc003tgu.2	-	12	1110	c.1041A>T	c.(1039-1041)AAA>AAT	p.K347N	AMPH_uc003tgv.2_Missense_Mutation_p.K347N|AMPH_uc003tgt.2_Missense_Mutation_p.K100N	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	347					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						AAGTCTCCTCTTTCTTCACCT	0.433													8	51					0	0	0.006214	0	0	
URGCP	55665	broad.mit.edu	37	7	43918566	43918566	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:43918566C>T	uc003tiw.2	-	6	553	c.496G>A	c.(496-498)GCC>ACC	p.A166T	URGCP_uc003tiu.2_Missense_Mutation_p.A123T|URGCP_uc003tiv.2_Missense_Mutation_p.A91T|URGCP_uc003tix.2_Missense_Mutation_p.A157T|URGCP_uc003tiy.2_Missense_Mutation_p.A123T|URGCP_uc003tiz.2_Missense_Mutation_p.A123T|URGCP_uc011kbj.1_Missense_Mutation_p.A123T	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	166					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						TAAATGTCGGCAGCAAGGTCA	0.562													12	58					0	0	0.000978	0	0	
OGDH	4967	broad.mit.edu	37	7	44721400	44721400	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:44721400C>T	uc003tln.2	+	10	1397	c.1288C>T	c.(1288-1290)CCA>TCA	p.P430S	OGDH_uc011kbx.1_Missense_Mutation_p.P426S|OGDH_uc011kby.1_Missense_Mutation_p.P280S|OGDH_uc003tlp.2_Missense_Mutation_p.P441S|OGDH_uc011kbz.1_Missense_Mutation_p.P225S|OGDH_uc003tlo.1_Missense_Mutation_p.P263S	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	430					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	CAGCGACCTGCCATCCTACAC	0.537													16	75					0	0	0.003163	0	0	
GRB10	2887	broad.mit.edu	37	7	50742167	50742167	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:50742167G>A	uc003tpi.2	-	3	359	c.328C>T	c.(328-330)CAG>TAG	p.Q110*	GRB10_uc003tph.3_Nonsense_Mutation_p.Q52*|GRB10_uc003tpj.2_Nonsense_Mutation_p.Q110*|GRB10_uc003tpk.2_Nonsense_Mutation_p.Q110*|GRB10_uc010kzb.2_Nonsense_Mutation_p.Q52*|GRB10_uc003tpl.2_Nonsense_Mutation_p.Q104*|GRB10_uc003tpm.2_Nonsense_Mutation_p.Q52*|GRB10_uc003tpn.2_Nonsense_Mutation_p.Q52*	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	110					insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					TGGGAGCGCTGCACCCTCTGC	0.657									Russell-Silver_syndrome				4	34					0	0	0.001168	0	0	
POM121L12	285877	broad.mit.edu	37	7	53104122	53104122	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:53104122C>A	uc003tpz.2	+	1	774	c.758C>A	c.(757-759)CCT>CAT	p.P253H		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	253											0						GATGCTTGGCCTTCCGTGCTG	0.637													12	52					4.3838e-07	4.84858e-07	0.001855	1	0	
PHKG1	5260	broad.mit.edu	37	7	56149350	56149350	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:56149350C>T	uc003trz.1	-	9	1086	c.891G>A	c.(889-891)CGG>CGA	p.R297R	PSPH_uc003trj.2_Intron|PHKG1_uc003try.1_Silent_p.R191R|PHKG1_uc011kdb.1_Silent_p.R329R|PHKG1_uc011kdc.1_Silent_p.R288R|PHKG1_uc011kdd.1_Silent_p.R243R	NM_006213	NP_006204	Q16816	PHKG1_HUMAN	phosphorylase kinase gamma subunit 1	297					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			large_intestine(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			GGCTGAAGTGCCGCACTTCCT	0.607													5	35					0	0	0.001168	0	0	
ZNF479	90827	broad.mit.edu	37	7	57188753	57188753	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:57188753T>C	uc010kzo.2	-	5	640	c.369A>G	c.(367-369)TTA>TTG	p.L123L		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	123					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TTTTAAATTGTAATTTCTCAT	0.373													15	105					0	0	0.008871	0	0	
TYW1	55253	broad.mit.edu	37	7	66563632	66563632	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:66563632T>G	uc003tvn.2	+	12	1638	c.1489T>G	c.(1489-1491)TTT>GTT	p.F497V	TYW1_uc010lai.2_RNA|TYW1_uc011kef.1_Missense_Mutation_p.F111V	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	497					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				GATCAACAGGTTTTTGAAGCT	0.478													10	56					0	0	0.001855	0	0	
WBSCR17	64409	broad.mit.edu	37	7	70886093	70886093	+	Splice_Site	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:70886093T>C	uc003tvy.2	+	5	962	c.962_splice	c.e5+2	p.R321_splice	WBSCR17_uc003tvz.2_Splice_Site_p.R20_splice	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CCCCATCAGGTCTGTGGCTGG	0.612													4	42					0	0	0.009096	0	0	
RSBN1L	222194	broad.mit.edu	37	7	77407902	77407902	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:77407902G>A	uc010ldt.1	+	8	2002	c.1958G>A	c.(1957-1959)CGC>CAC	p.R653H	RSBN1L_uc003ugm.2_Missense_Mutation_p.R435H	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	653						nucleus				ovary(1)	1						GAAGGCATTCGCTATGCCAGG	0.348													21	100					0	0	0.010504	0	0	
PCLO	27445	broad.mit.edu	37	7	82579563	82579563	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:82579563C>T	uc003uhx.2	-	6	10630	c.10341G>A	c.(10339-10341)ACG>ACA	p.T3447T	PCLO_uc003uhv.2_Silent_p.T3447T|PCLO_uc010lec.2_Silent_p.T412T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3378					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CTTCGTCATCCGTTTGTACAC	0.438													15	79					0	0	0.003163	0	0	
PCLO	27445	broad.mit.edu	37	7	82585300	82585300	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:82585300C>G	uc003uhx.2	-	5	5258	c.4969G>C	c.(4969-4971)GTA>CTA	p.V1657L	PCLO_uc003uhv.2_Missense_Mutation_p.V1657L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1588					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CCAGTAACTACAAGTTCTTCA	0.388													25	102					0	0	0.002780	0	0	
ZNF804B	219578	broad.mit.edu	37	7	88963842	88963842	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:88963842G>A	uc011khi.1	+	4	2084	c.1546G>A	c.(1546-1548)GTC>ATC	p.V516I		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	516						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AGAGAGCCAAGTCTCAGGTTT	0.383										HNSCC(36;0.09)			17	57					0	0	0.004007	0	0	
FZD1	8321	broad.mit.edu	37	7	90896031	90896031	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:90896031C>T	uc003ula.2	+	1	2249	c.1836C>T	c.(1834-1836)ATC>ATT	p.I612I		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	612	Helical; Name=7; (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			TGACGCTGATCGTGGGCATCA	0.612													11	59					0	0	0.008291	0	0	
AKAP9	10142	broad.mit.edu	37	7	91622286	91622286	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:91622286G>A	uc003ulg.2	+	5	718	c.493G>A	c.(493-495)GCT>ACT	p.A165T	AKAP9_uc003uld.3_Missense_Mutation_p.A165T|AKAP9_uc003ule.2_Missense_Mutation_p.A177T|AKAP9_uc003ulf.2_Missense_Mutation_p.A165T	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	177	Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AAGTGAGTTGGCTGGGAAGCA	0.423			T	BRAF	papillary thyroid								8	39					0	0	0.003080	0	0	
CALCR	799	broad.mit.edu	37	7	93055791	93055791	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:93055791C>A	uc003umv.1	-	15	1665	c.1404G>T	c.(1402-1404)GAG>GAT	p.E468D	CALCR_uc011kia.1_Missense_Mutation_p.E248D|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.E434D|CALCR_uc003umw.2_Missense_Mutation_p.E434D	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	450	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	TGTCGCCAGCCTCCGCAGCAG	0.577													20	102					1.50039e-11	1.72026e-11	0.001882	1	0	
TRRAP	8295	broad.mit.edu	37	7	98609072	98609072	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:98609072G>T	uc003upp.2	+	71	11418	c.11209G>T	c.(11209-11211)GAG>TAG	p.E3737*	TRRAP_uc011kis.1_Nonsense_Mutation_p.E3708*|TRRAP_uc003upr.2_Nonsense_Mutation_p.E3443*|TRRAP_uc003ups.2_5'Flank	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3737	PI3K/PI4K.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CAACATTTCTGAGTTTCTGAC	0.552													17	70					1.37522e-17	1.60951e-17	0.007413	1	0	
PTCD1	26024	broad.mit.edu	37	7	99023071	99023071	+	Missense_Mutation	SNP	G	A	A	rs150731740		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:99023071G>A	uc003uqh.2	-	6	1215	c.1084C>T	c.(1084-1086)CGG>TGG	p.R362W	PTCD1_uc011kiw.1_Missense_Mutation_p.R411W	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	362										ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			CTCCTTGGCCGCTGCCTGCTC	0.647													10	71					0	0	0.006214	0	0	
ZAN	7455	broad.mit.edu	37	7	100395212	100395212	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:100395212G>T	uc003uwj.2	+	48	8545	c.8380G>T	c.(8380-8382)GAG>TAG	p.E2794*	ZAN_uc003uwk.2_Nonsense_Mutation_p.E2703*|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Nonsense_Mutation_p.E743*	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2794	VWFC 5.|Cytoplasmic (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GAAAACGCAGGAGGGAGACAG	0.602													4	37					0.00024832	0.000263275	0.009096	1	0	
EPHB4	2050	broad.mit.edu	37	7	100417826	100417826	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:100417826C>T	uc003uwn.1	-	5	1392	c.901G>A	c.(901-903)GTC>ATC	p.V301I	EPHB4_uc003uwm.1_Missense_Mutation_p.V208I|EPHB4_uc010lhj.1_Missense_Mutation_p.V301I|EPHB4_uc011kkf.1_Missense_Mutation_p.V301I|EPHB4_uc011kkg.1_Intron|EPHB4_uc011kkh.1_Missense_Mutation_p.V301I	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	301	Extracellular (Potential).|Cys-rich.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					CACTGGCAGACGGCTGATCCA	0.637													16	120					0	0	0.004007	0	0	
TRIP6	7205	broad.mit.edu	37	7	100469250	100469250	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:100469250G>C	uc003uww.2	+	7	1255	c.1085G>C	c.(1084-1086)TGC>TCC	p.C362S		NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	362	LIM zinc-binding 2.				focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					CACCCTGGCTGCTTCACCTGC	0.622													13	52					0	0	0.002450	0	0	
MUC17	140453	broad.mit.edu	37	7	100677233	100677233	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:100677233T>C	uc003uxp.1	+	3	2589	c.2536T>C	c.(2536-2538)TCT>CCT	p.S846P	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	846	Extracellular (Potential).|12.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AGTCAGTTCATCTCCTACACC	0.502													95	476					0	0	0.003610	0	0	
CDHR3	222256	broad.mit.edu	37	7	105615467	105615467	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:105615467A>G	uc003vdl.3	+	2	332	c.224A>G	c.(223-225)AAT>AGT	p.N75S	CDHR3_uc003vdk.2_5'UTR|CDHR3_uc011kls.1_RNA|CDHR3_uc003vdm.3_Missense_Mutation_p.N62S|CDHR3_uc011klt.1_Intron	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	75	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						TTTAGGGTGAATTGGCTGTCA	0.458													22	97					0	0	0.002780	0	0	
PRKAR2B	5577	broad.mit.edu	37	7	106786831	106786831	+	Silent	SNP	C	T	T	rs146903153	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:106786831C>T	uc003vdx.2	+	6	841	c.666C>T	c.(664-666)GGC>GGT	p.G222G		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	222	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						GGAGTTTCGGCGAACTGGCCT	0.428													11	43					0	0	0.001368	0	0	
FEZF1	389549	broad.mit.edu	37	7	121943889	121943889	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:121943889C>T	uc003vkd.2	-	1	677	c.603G>A	c.(601-603)AGG>AGA	p.R201R	FEZF1_uc003vkc.2_Silent_p.R151R|uc010lko.1_RNA|uc003vkf.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	201					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						CCAGTTTATTCCTTTCGGCTA	0.567													7	54					0	0	0.003080	0	0	
GRM8	2918	broad.mit.edu	37	7	126746611	126746611	+	Silent	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:126746611A>C	uc003vlr.2	-	2	977	c.666T>G	c.(664-666)GCT>GCG	p.A222A	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.A222A|GRM8_uc010lkz.1_RNA|GRM8_uc003vlu.1_5'UTR	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	222	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TCCCCTCAGAAGCCAGTGTCG	0.493										HNSCC(24;0.065)			12	37					0	0	0.000978	0	0	
LRRC4	64101	broad.mit.edu	37	7	127668913	127668913	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:127668913C>T	uc003vmk.2	-	2	1918	c.1781G>A	c.(1780-1782)GGG>GAG	p.G594E	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	594	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		CACTACTGCCCCCTCACCTGA	0.458													4	31					0	0	0.009096	0	0	
ZC3HAV1	56829	broad.mit.edu	37	7	138732366	138732366	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:138732366C>T	uc003vun.2	-	13	3071	c.2683G>A	c.(2683-2685)GAA>AAA	p.E895K		NM_020119	NP_064504	Q7Z2W4	ZCCHV_HUMAN	zinc finger antiviral protein isoform 1	895	PARP catalytic.				response to virus	cytoplasm|nucleus	NAD+ ADP-ribosyltransferase activity|RNA binding|zinc ion binding			ovary(1)	1						GCTTTGTCTTCAGTATATTCA	0.428													19	78					0	0	0.007413	0	0	
BRAF	673	broad.mit.edu	37	7	140434413	140434413	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:140434413G>A	uc003vwc.3	-	18	2346	c.2285C>T	c.(2284-2286)GCG>GTG	p.A762V		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	762					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	GACAGGAAACGCACCATATCC	0.403		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				31	325					0	0	0.006999	0	0	
GIMAP4	55303	broad.mit.edu	37	7	150269275	150269275	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:150269275C>T	uc003whl.2	+	3	199	c.117C>T	c.(115-117)ACC>ACT	p.T39T	GIMAP4_uc011kuu.1_5'UTR|GIMAP4_uc011kuv.1_Silent_p.T53T	NM_018326	NP_060796	Q9NUV9	GIMA4_HUMAN	GTPase, IMAP family member 4	39	GTP (Potential).						GTP binding	p.T39T(1)		ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0179)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGGGTAAAACCGGAGCAGGAA	0.448													7	60					0	0	0.003080	0	0	
GIMAP6	474344	broad.mit.edu	37	7	150325008	150325008	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:150325008G>A	uc003whn.2	-	3	1102	c.678C>T	c.(676-678)AAC>AAT	p.N226N	GIMAP6_uc003whm.2_Silent_p.N146N	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	226							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AATCTCCTTCGTTTTCCCACA	0.517													35	170					0	0	0.002445	0	0	
EFHA2	286097	broad.mit.edu	37	8	16962959	16962959	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:16962959G>C	uc003wxd.2	+	11	1165	c.1123G>C	c.(1123-1125)GAA>CAA	p.E375Q		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	375						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		TCTAGAAATAGAATTCCTTTC	0.294													3	23					0	0	0.004672	0	0	
CSGALNACT1	55790	broad.mit.edu	37	8	19362795	19362795	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:19362795A>C	uc011kyn.1	-	4	1615	c.551T>G	c.(550-552)ATT>AGT	p.I184S	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.I184S|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.I183S|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	184	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		GGCTGATTCAATGGCTTCCAC	0.522													9	41					0	0	0.004482	0	0	
LPL	4023	broad.mit.edu	37	8	19809439	19809439	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:19809439C>T	uc003wzk.3	+	3	779	c.409C>T	c.(409-411)CGG>TGG	p.R137W		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	137					fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	GGATGTGGCCCGGTTTATCAA	0.522													12	51					0	0	0.000978	0	0	
NEFM	4741	broad.mit.edu	37	8	24774700	24774700	+	Silent	SNP	C	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:24774700C>G	uc003xed.3	+	3	1365	c.1332C>G	c.(1330-1332)CCC>CCG	p.P444P	NEFM_uc011lac.1_Silent_p.P444P|NEFM_uc010lue.2_Silent_p.P68P	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	444	Tail.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		TGGAAGCTCCCAAGCTTAAGG	0.468													9	53					0	0	0.006214	0	0	
RNF5P1	286140	broad.mit.edu	37	8	38458680	38458680	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:38458680C>T	uc003xly.2	-	1	96	c.39G>A	c.(37-39)GGG>GGA	p.G13G		NR_003129				SubName: Full=Putative uncharacterized protein RNF5;												0						CGCGATTTGGCCCCTCGGGGC	0.622													3	10					0	0	0.004672	0	0	
TACC1	6867	broad.mit.edu	37	8	38688659	38688659	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:38688659G>A	uc010lwp.2	+	6	2056	c.1677G>A	c.(1675-1677)ACG>ACA	p.T559T	TACC1_uc011lby.1_Silent_p.T364T|TACC1_uc003xma.2_Translation_Start_Site|TACC1_uc003xlz.2_Silent_p.T364T|TACC1_uc003xmc.3_Silent_p.T363T|TACC1_uc011lbz.1_Silent_p.T546T|TACC1_uc003xmb.3_Silent_p.T485T|TACC1_uc003xme.1_Silent_p.T133T|TACC1_uc003xmd.1_Silent_p.T121T|TACC1_uc010lwo.1_Silent_p.T92T|TACC1_uc003xmf.3_Silent_p.T149T|TACC1_uc011lca.1_Silent_p.T542T|TACC1_uc011lcb.1_Silent_p.T335T|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_Silent_p.T376T|TACC1_uc010lwq.2_Silent_p.T376T	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	559					cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)			AGAAGGAGACGTGCCAGAAGA	0.478													8	35					0	0	0.004482	0	0	
ADAM2	2515	broad.mit.edu	37	8	39613289	39613289	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:39613289T>A	uc003xnj.2	-	16	1830	c.1755A>T	c.(1753-1755)CAA>CAT	p.Q585H	ADAM2_uc003xnk.2_Missense_Mutation_p.Q566H|ADAM2_uc011lck.1_Intron|ADAM2_uc003xnl.2_Missense_Mutation_p.Q429H	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	585	Extracellular (Potential).|Cys-rich.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		TCCACATCTTTTGGCTGTCTG	0.338													10	36					0	0	0.008291	0	0	
PRKDC	5591	broad.mit.edu	37	8	48701571	48701571	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:48701571G>T	uc003xqi.2	-	77	10855	c.10798C>A	c.(10798-10800)CCT>ACT	p.P3600T	PRKDC_uc003xqj.2_Missense_Mutation_p.P3600T|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	3600					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TTATTTACAGGGGTTTTTGCT	0.378								NHEJ					7	36					0.00198382	0.0020721	0.001984	1	0	
CHD7	55636	broad.mit.edu	37	8	61654080	61654080	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:61654080C>T	uc003xue.2	+	2	566	c.89C>T	c.(88-90)CCG>CTG	p.P30L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	30					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TGTGGTTACCCGGAAAATCCA	0.438													4	20					0	0	0.009096	0	0	
CYP7B1	9420	broad.mit.edu	37	8	65528708	65528708	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:65528708T>G	uc003xvj.2	-	3	594	c.390A>C	c.(388-390)AAA>AAC	p.K130N		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	130					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				TGTCATGATTTTTTTGCAACT	0.328													15	47					0	0	0.003163	0	0	
TRIM55	84675	broad.mit.edu	37	8	67066483	67066483	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:67066483C>T	uc003xvv.2	+	9	1664	c.1438C>T	c.(1438-1440)CGG>TGG	p.R480W	TRIM55_uc003xvu.2_Missense_Mutation_p.R480W|TRIM55_uc003xvw.2_Intron|TRIM55_uc003xvx.2_Intron	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	480						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			TTCGAATGTACGGAAGGCAGA	0.567													10	45					0	0	0.008291	0	0	
C8orf34	116328	broad.mit.edu	37	8	69728125	69728125	+	Silent	SNP	C	T	T	rs145199497	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:69728125C>T	uc010lyz.2	+	13	1345	c.1296C>T	c.(1294-1296)TCC>TCT	p.S432S	C8orf34_uc003xyb.2_Silent_p.S407S	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	432					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			GTGCAGGTTCCGCTGATCTTC	0.443													26	46					0	0	0.003954	0	0	
ZFHX4	79776	broad.mit.edu	37	8	77765876	77765876	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:77765876T>G	uc003yav.2	+	10	6971	c.6584T>G	c.(6583-6585)GTT>GGT	p.V2195G	ZFHX4_uc003yau.1_Missense_Mutation_p.V2240G|ZFHX4_uc003yaw.1_Missense_Mutation_p.V2195G	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2195	Homeobox 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CAGCTTAGGGTTCTGCAAGAC	0.403										HNSCC(33;0.089)			21	34					0	0	0.008871	0	0	
CA13	377677	broad.mit.edu	37	8	86163053	86163053	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:86163053A>G	uc003ydg.2	+	2	464	c.122A>G	c.(121-123)TAT>TGT	p.Y41C	CA13_uc003ydf.1_RNA	NM_198584	NP_940986	Q8N1Q1	CAH13_HUMAN	carbonic anhydrase XIII	41					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0						GAAGTGAAATATGACTCTTCC	0.398													27	124					0	0	0.003954	0	0	
TMEM67	91147	broad.mit.edu	37	8	94805495	94805495	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:94805495C>T	uc011lgk.1	+	16	1716	c.1645C>T	c.(1645-1647)CGC>TGC	p.R549C	TMEM67_uc010maw.2_Missense_Mutation_p.R255C|TMEM67_uc003yga.3_Missense_Mutation_p.R468C|TMEM67_uc011lgl.1_5'Flank	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1	549					cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			ATGGAAGAGGCGCATTGGGAG	0.368													12	42					0	0	0.003163	0	0	
PGCP	10404	broad.mit.edu	37	8	98155373	98155373	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:98155373G>A	uc003yhw.2	+	8	1547	c.1381G>A	c.(1381-1383)GTT>ATT	p.V461I		NM_016134	NP_057218	Q9Y646	PGCP_HUMAN	plasma glutamate carboxypeptidase precursor	461					peptide metabolic process|proteolysis	cytoplasm|extracellular space	metal ion binding|metallocarboxypeptidase activity			upper_aerodigestive_tract(1)	1	Breast(36;1.86e-05)					TGTTTCTTATGTTGTTGCAGA	0.453													7	68					0	0	0.003080	0	0	
C8orf47	203111	broad.mit.edu	37	8	99101668	99101668	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:99101668G>C	uc003yih.1	+	2	571	c.423G>C	c.(421-423)GAG>GAC	p.E141D		NM_173549	NP_775820	Q6P6B1	CH047_HUMAN	hypothetical protein LOC203111	141											0	Breast(36;2.31e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.214)			CAGAGGCCGAGTCTCTAAAAG	0.557													14	41					0	0	0.003163	0	0	
VPS13B	157680	broad.mit.edu	37	8	100520118	100520118	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:100520118T>C	uc003yiv.2	+	28	4389	c.4278T>C	c.(4276-4278)AAT>AAC	p.N1426N	VPS13B_uc003yiw.2_Intron|VPS13B_uc003yiu.1_3'UTR|VPS13B_uc003yix.1_Silent_p.N896N	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1426					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTTTCAGTAATTGCTCTGGCT	0.438													9	85					0	0	0.006214	0	0	
VPS13B	157680	broad.mit.edu	37	8	100844880	100844880	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:100844880G>T	uc003yiv.2	+	52	9800	c.9689G>T	c.(9688-9690)AGG>ATG	p.R3230M	VPS13B_uc003yiw.2_Missense_Mutation_p.R3205M	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3230					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TTCTGTACCAGGTATTTTATG	0.458													5	37					2.7689e-08	3.09896e-08	0.001984	1	0	
RGS22	26166	broad.mit.edu	37	8	101075945	101075945	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:101075945C>A	uc003yjb.1	-	8	1246	c.1051G>T	c.(1051-1053)GTG>TTG	p.V351L	RGS22_uc003yja.1_Missense_Mutation_p.V170L|RGS22_uc003yjc.1_Missense_Mutation_p.V339L|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	351					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			TCAAATGACACTTTTGTTATA	0.328													12	51					5.50884e-06	6.00641e-06	0.001368	1	0	
PKHD1L1	93035	broad.mit.edu	37	8	110456117	110456117	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:110456117C>A	uc003yne.2	+	37	4881	c.4777C>A	c.(4777-4779)CCA>ACA	p.P1593T		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1593	Extracellular (Potential).|IPT/TIG 8.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TAGTAATCTCCCATGGGCTAA	0.308										HNSCC(38;0.096)			9	79					1.58986e-06	1.74699e-06	0.008291	1	0	
PKHD1L1	93035	broad.mit.edu	37	8	110478991	110478991	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:110478991C>T	uc003yne.2	+	50	8702	c.8598C>T	c.(8596-8598)GAC>GAT	p.D2866D		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2866	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTCTTTCAGACTCTTTTGGTA	0.368										HNSCC(38;0.096)			3	24					0	0	0.004672	0	0	
CSMD3	114788	broad.mit.edu	37	8	113304872	113304872	+	Silent	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:113304872A>G	uc003ynu.2	-	55	8841	c.8682T>C	c.(8680-8682)AAT>AAC	p.N2894N	CSMD3_uc003yns.2_Silent_p.N2096N|CSMD3_uc003ynt.2_Silent_p.N2854N|CSMD3_uc011lhx.1_Silent_p.N2725N	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2894	Extracellular (Potential).|Sushi 19.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TTACCACATCATTAAAGTTGA	0.463										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	94					0	0	0.001855	0	0	
ADCY8	114	broad.mit.edu	37	8	132051889	132051889	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:132051889C>T	uc003ytd.3	-	1	947	c.691G>A	c.(691-693)GTG>ATG	p.V231M	ADCY8_uc010mds.2_Missense_Mutation_p.V231M	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	231	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TTCCTGACCACCACCAGGGCG	0.642										HNSCC(32;0.087)			9	52					0	0	0.004482	0	0	
PHF20L1	51105	broad.mit.edu	37	8	133849991	133849991	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:133849991G>T	uc003ytt.2	+	17	2451	c.2126G>T	c.(2125-2127)TGC>TTC	p.C709F	PHF20L1_uc011lja.1_Missense_Mutation_p.C683F	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	709	PHD-type.						nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			CACAGCGTGTGCATGGGGCTG	0.512													10	47					3.86212e-05	4.14675e-05	0.008291	1	0	
TG	7038	broad.mit.edu	37	8	133895150	133895150	+	Silent	SNP	G	A	A	rs146255464	byFrequency	TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:133895150G>A	uc003ytw.2	+	8	1022	c.981G>A	c.(979-981)GCG>GCA	p.A327A		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	327	Thyroglobulin type-1 4.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ACTATCAGGCGGTGCAGTGCC	0.597													5	51					0	0	0.001168	0	0	
GPR20	2843	broad.mit.edu	37	8	142367096	142367096	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr8:142367096C>A	uc003ywf.2	-	2	1017	c.928G>T	c.(928-930)GGC>TGC	p.G310C		NM_005293	NP_005284	Q99678	GPR20_HUMAN	G protein-coupled receptor 20	310	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(97;4.32e-16)|all_epithelial(106;6.61e-14)|Lung NSC(106;9.4e-06)|all_lung(105;1.35e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0415)			CCGAAGAGGCCTCGGACGGTG	0.642													6	50					0.00198382	0.0020721	0.001984	1	0	
SLC1A1	6505	broad.mit.edu	37	9	4576621	4576621	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:4576621G>A	uc003zij.1	+	10	1287	c.1051G>A	c.(1051-1053)GAC>AAC	p.D351N	C9orf68_uc003zik.2_Intron	NM_004170	NP_004161	P43005	EAA3_HUMAN	solute carrier family 1, member 1	351					D-aspartate import|L-glutamate import|synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0		Acute lymphoblastic leukemia(2;0.0359)|Breast(48;0.0457)		GBM - Glioblastoma multiforme(50;0.0124)|Lung(218;0.183)	L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)	TAACCAGGTGGACAAGAGGAT	0.463													11	85					0	0	0.008291	0	0	
ERMP1	79956	broad.mit.edu	37	9	5787567	5787567	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:5787567G>A	uc003zjm.1	-	14	2467	c.2413C>T	c.(2413-2415)CGA>TGA	p.R805*	ERMP1_uc011lme.1_RNA|ERMP1_uc010mhs.1_Nonsense_Mutation_p.R419*	NM_024896	NP_079172	Q7Z2K6	ERMP1_HUMAN	aminopeptidase Fxna	805	Extracellular (Potential).				proteolysis	endoplasmic reticulum membrane|integral to membrane	metal ion binding|metallopeptidase activity			ovary(1)	1		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00115)|Lung(218;0.111)		TTGTGGGCTCGAACATAGAAG	0.418													13	76					0	0	0.001855	0	0	
SLC24A2	25769	broad.mit.edu	37	9	19785935	19785935	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:19785935C>A	uc003zoa.1	-	1	992	c.930G>T	c.(928-930)AAG>AAT	p.K310N	SLC24A2_uc003zob.1_Missense_Mutation_p.K310N	NM_020344	NP_065077	Q9UI40	NCKX2_HUMAN	solute carrier family 24	310	Cytoplasmic (Potential).				visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)		CACCACCAACCTTTGCTTGGG	0.393													10	50					2.52707e-12	2.92517e-12	0.006214	1	0	
KIAA1797	54914	broad.mit.edu	37	9	20944775	20944775	+	Splice_Site	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:20944775T>C	uc003zog.1	+	31	3918	c.3555_splice	c.e31+2	p.E1185_splice	KIAA1797_uc003zoh.1_Splice_Site_p.E621_splice	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914							integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		TTTCAGGAGGTAAGAGATGGA	0.463													3	20					0	0	0.004672	0	0	
IFNA7	3444	broad.mit.edu	37	9	21201782	21201782	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:21201782C>A	uc003zop.1	-	1	423	c.383G>T	c.(382-384)GGG>GTG	p.G128V	IFNA14_uc003zoo.1_Intron	NM_021057	NP_066401	P01567	IFNA7_HUMAN	interferon, alpha 7 precursor	128					blood coagulation|cell-cell signaling|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				GBM - Glioblastoma multiforme(5;4.75e-197)|Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		CTCTTCCACCCCAACCTCCTG	0.453													18	185					0.00498961	0.00514801	0.004990	1	0	
UNC13B	10497	broad.mit.edu	37	9	35382496	35382496	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:35382496A>G	uc003zwq.2	+	20	2843	c.2551A>G	c.(2551-2553)AAC>GAC	p.N851D	UNC13B_uc003zwr.2_Missense_Mutation_p.N851D	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	851					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			TGCAGCCTCCAACTTTGGGGT	0.363													24	121					0	0	0.004656	0	0	
NPR2	4882	broad.mit.edu	37	9	35808513	35808513	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:35808513C>T	uc003zyd.2	+	19	2720	c.2720C>T	c.(2719-2721)ACG>ATG	p.T907M	NPR2_uc010mlb.2_Missense_Mutation_p.T883M|SPAG8_uc003zye.2_Intron	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	907	Guanylate cyclase.|Cytoplasmic (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	CAGGTGGAGACGATTGGGGAT	0.478													7	36					0	0	0.004482	0	0	
PCSK5	5125	broad.mit.edu	37	9	78686713	78686713	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:78686713G>A	uc004ajz.2	+	7	1331	c.793G>A	c.(793-795)GTG>ATG	p.V265M	PCSK5_uc004ajy.2_Missense_Mutation_p.V265M|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	265	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						CCCCCAGCACGTGCACATTTA	0.542													19	117					0	0	0.010504	0	0	
PRUNE2	158471	broad.mit.edu	37	9	79322985	79322985	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:79322985T>C	uc010mpk.2	-	8	4329	c.4205A>G	c.(4204-4206)GAG>GGG	p.E1402G		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1402					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTCCTCATACTCTAAAACTTC	0.453													12	40					0	0	0.000978	0	0	
AGTPBP1	23287	broad.mit.edu	37	9	88200433	88200433	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:88200433C>T	uc011ltd.1	-	22	3143	c.3110G>A	c.(3109-3111)TGG>TAG	p.W1037*	AGTPBP1_uc004aod.3_Nonsense_Mutation_p.W663*|AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Nonsense_Mutation_p.W997*|AGTPBP1_uc011lte.1_Nonsense_Mutation_p.W1049*	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	1037					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						ATTGGTATGCCACACTGTCTC	0.328													23	109					0	0	0.003330	0	0	
DAPK1	1612	broad.mit.edu	37	9	90321379	90321379	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:90321379C>T	uc004apc.2	+	26	3531	c.3393C>T	c.(3391-3393)ATC>ATT	p.I1131I	DAPK1_uc004apd.2_Silent_p.I1131I|DAPK1_uc011ltg.1_Silent_p.I1065I|DAPK1_uc011lth.1_Silent_p.I868I|DAPK1_uc004apg.2_Silent_p.I108I	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	1131					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						GCGTGCGCATCGTGCCCGTGG	0.612									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				3	23					0	0	0.004672	0	0	
NR4A3	8013	broad.mit.edu	37	9	102590532	102590532	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:102590532G>A	uc004baf.1	+	3	937	c.208G>A	c.(208-210)GAA>AAA	p.E70K	NR4A3_uc004bae.2_Missense_Mutation_p.E70K|NR4A3_uc004bag.1_Missense_Mutation_p.E70K|NR4A3_uc004bai.2_Missense_Mutation_p.E81K	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	70					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				GAGCAACTACGAACTCAAGCC	0.517			T	EWSR1	extraskeletal myxoid chondrosarcoma								17	58					0	0	0.004990	0	0	
EPB41L4B	54566	broad.mit.edu	37	9	111956584	111956584	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:111956584G>A	uc004bdz.1	-	21	2434	c.2139C>T	c.(2137-2139)TCC>TCT	p.S713S		NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	713						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						GCAGCGGCACGGAGACTTGTG	0.612													19	50					0	0	0.007413	0	0	
SVEP1	79987	broad.mit.edu	37	9	113221306	113221306	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:113221306T>G	uc010mtz.2	-	19	3747	c.3410A>C	c.(3409-3411)AAG>ACG	p.K1137T	SVEP1_uc010mua.1_Missense_Mutation_p.K1137T	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1137					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GCAGAAGGCCTTCCCTGCATT	0.463													17	85					0	0	0.004990	0	0	
TRUB2	26995	broad.mit.edu	37	9	131071975	131071975	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:131071975G>A	uc004buq.1	-	8	860	c.850C>T	c.(850-852)CGG>TGG	p.R284W		NM_015679	NP_056494	O95900	TRUB2_HUMAN	TruB pseudouridine (psi) synthase homolog 2	284					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(1)	1						GTAGCAGCCCGGATAGCATCC	0.637													5	37					0	0	0.000602	0	0	
SLC27A4	10999	broad.mit.edu	37	9	131117771	131117771	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:131117771C>T	uc004but.2	+	11	1841	c.1557C>T	c.(1555-1557)ACC>ACT	p.T519T	SLC27A4_uc004buu.2_Silent_p.T113T	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	519					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						TGTCCACCACCGAGGTGGAAG	0.622													5	42					0	0	0.000602	0	0	
FUBP3	8939	broad.mit.edu	37	9	133506105	133506105	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:133506105G>A	uc004bzr.1	+	13	1316	c.1208G>A	c.(1207-1209)CGG>CAG	p.R403Q	FUBP3_uc004bzs.1_Missense_Mutation_p.R316Q	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	403	KH 4.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		CCCAACCTGCGGAGATTCACC	0.602													7	34					0	0	0.003080	0	0	
GTF3C5	9328	broad.mit.edu	37	9	135929863	135929863	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:135929863G>A	uc004cci.3	+	7	1394	c.1057G>A	c.(1057-1059)GTC>ATC	p.V353I	GTF3C5_uc010mzz.2_Missense_Mutation_p.V228I|GTF3C5_uc004ccj.3_Missense_Mutation_p.V353I	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	353						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		CCCCATCACCGTCAAGAAGAC	0.612													6	28					0	0	0.001984	0	0	
ADAMTSL2	9719	broad.mit.edu	37	9	136402618	136402618	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:136402618G>A	uc011mdl.1	+	3	739	c.182G>A	c.(181-183)CGC>CAC	p.R61H	ADAMTSL2_uc004cei.2_Missense_Mutation_p.R61H	NM_001145320	NP_001138792	Q86TH1	ATL2_HUMAN	ADAMTS-like 2 precursor	61	TSP type-1 1.				negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;9.31e-08)|Epithelial(140;6.62e-07)|all cancers(34;7.74e-06)		GCGTGTTCCCGCAGTTGCGGG	0.672													4	38					0	0	0.009096	0	0	
SARDH	1757	broad.mit.edu	37	9	136573487	136573487	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:136573487G>A	uc004cep.3	-	11	1526	c.1392C>T	c.(1390-1392)TAC>TAT	p.Y464Y	SARDH_uc004ceo.2_Silent_p.Y464Y|SARDH_uc011mdn.1_Silent_p.Y464Y|SARDH_uc011mdo.1_Silent_p.Y296Y	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	464					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		AGTTCTTGGCGTAGGACTCAT	0.652													6	90					0	0	0.001984	0	0	
GLT6D1	360203	broad.mit.edu	37	9	138516492	138516492	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:138516492C>T	uc010nbd.1	-	5	536	c.282G>A	c.(280-282)CCG>CCA	p.P94P		NM_182974	NP_892019	Q7Z4J2	GL6D1_HUMAN	glycosyltransferase 6 domain containing 1	94	Lumenal (Potential).				carbohydrate metabolic process	integral to membrane	transferase activity, transferring hexosyl groups			ovary(1)	1		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;4.3e-07)|Epithelial(140;1.58e-06)|all cancers(34;5.36e-05)		AGTGTAGGAACGGCCTCAGGT	0.393													14	65					0	0	0.001855	0	0	
PHPT1	29085	broad.mit.edu	37	9	139743963	139743963	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:139743963C>T	uc004cjp.2	+	2	703	c.81C>T	c.(79-81)GTC>GTT	p.V27V	PHPT1_uc011mei.1_Silent_p.V27V|PHPT1_uc004cjq.3_Silent_p.V27V|MAMDC4_uc004cjs.2_5'Flank|MAMDC4_uc011mej.1_5'Flank	NM_014172	NP_054891	Q9NRX4	PHP14_HUMAN	phosphohistidine phosphatase 1 isoform 3	27				V -> I (in Ref. 4; CAB66579).		cytosol	phosphohistidine phosphatase activity|phosphoprotein phosphatase activity				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		TGATCCGAGTCCACTCGGCTC	0.652													18	45					0	0	0.002780	0	0	
CACNA1B	774	broad.mit.edu	37	9	141016353	141016353	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr9:141016353C>T	uc004cog.2	+	46	7067	c.6922C>T	c.(6922-6924)CGC>TGC	p.R2308C	CACNA1B_uc004coi.2_Missense_Mutation_p.R1520C	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	2308	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity	p.R2308H(1)		breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TCACCCTCTCCGCCGCGTGCC	0.642													4	42					0	0	0.000602	0	0	
GPM6B	2824	broad.mit.edu	37	X	13795513	13795513	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:13795513T>G	uc004cvz.2	-	5	900	c.609A>C	c.(607-609)AAA>AAC	p.K203N	GPM6B_uc004cvx.2_Missense_Mutation_p.K184N|GPM6B_uc011min.1_Missense_Mutation_p.K117N|GPM6B_uc004cwa.2_Missense_Mutation_p.K184N|GPM6B_uc004cvw.2_Missense_Mutation_p.K243N|GPM6B_uc011mim.1_Missense_Mutation_p.K217N|GPM6B_uc004cvy.2_Missense_Mutation_p.K243N	NM_005278	NP_005269	Q13491	GPM6B_HUMAN	glycoprotein M6B isoform 3	203					cell differentiation|nervous system development	integral to membrane					0						AGCCACATATTTTTCCGGGGA	0.428													6	15					0	0	0.001168	0	0	
CDKL5	6792	broad.mit.edu	37	X	18598025	18598025	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:18598025A>G	uc004cym.2	+	6	593	c.340A>G	c.(340-342)AGC>GGC	p.S114G	CDKL5_uc004cyn.2_Missense_Mutation_p.S114G	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	114	Protein kinase.				neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					GAAAGTAAAAAGCTACATCTA	0.343													10	31					0	0	0.008291	0	0	
SHROOM4	57477	broad.mit.edu	37	X	50378091	50378091	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:50378091G>T	uc004dpe.2	-	4	1008	c.982C>A	c.(982-984)CTC>ATC	p.L328I	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Missense_Mutation_p.L212I	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	328					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					TGCCCACTGAGGCAACAGAAC	0.552													3	10					0.004672	0.00482621	0.004672	1	0	
GSPT2	23708	broad.mit.edu	37	X	51487718	51487718	+	Silent	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:51487718T>C	uc004dpl.2	+	1	1222	c.996T>C	c.(994-996)CAT>CAC	p.H332H		NM_018094	NP_060564	Q8IYD1	ERF3B_HUMAN	peptide chain release factor 3	332					cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|translational termination	cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1	Ovarian(276;0.236)					CAAGAGAACATGCGATGTTGG	0.418													12	44					0	0	0.001368	0	0	
TSPYL2	64061	broad.mit.edu	37	X	53113997	53113997	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:53113997C>T	uc004drw.2	+	3	1078	c.946C>T	c.(946-948)CCC>TCC	p.P316S	TSPYL2_uc004drv.2_Missense_Mutation_p.P360S|TSPYL2_uc004drx.1_5'UTR	NM_022117	NP_071400	Q9H2G4	TSYL2_HUMAN	TSPY-like 2	316					cell cycle|chromatin modification|negative regulation of cell cycle|negative regulation of cell growth|negative regulation of DNA replication|nucleosome assembly|regulation of protein kinase activity|regulation of signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|rDNA binding				0						CCAGACTAACCCCTACTTCAC	0.522													4	32					0	0	0.009096	0	0	
XIST	7503	broad.mit.edu	37	X	73069973	73069973	+	RNA	SNP	T	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:73069973T>G	uc004ebm.1	-	1		c.2616A>C				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0						CACTCTTTTTTACATTAGGTC	0.358													12	18					0	0	0.000978	0	0	
MAGEE2	139599	broad.mit.edu	37	X	75004886	75004886	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:75004886T>C	uc004ecj.1	-	1	186	c.1A>G	c.(1-3)ATG>GTG	p.M1V		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	1										ovary(1)|skin(1)	2						ACCAGAGACATGGTTCCAGGA	0.582													5	7					0	0	0.000602	0	0	
MAP7D3	79649	broad.mit.edu	37	X	135313820	135313820	+	Silent	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:135313820C>A	uc004ezt.2	-	8	1387	c.1296G>T	c.(1294-1296)GGG>GGT	p.G432G	MAP7D3_uc004ezs.2_Silent_p.G396G|MAP7D3_uc011mwc.1_Silent_p.G414G|MAP7D3_uc010nsa.1_Silent_p.G390G	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	432						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					CCTTGGGTGACCCTTTCACAC	0.587													29	38					2.65835e-16	3.09408e-16	0.007291	1	0	
MAGEC1	9947	broad.mit.edu	37	X	140994648	140994648	+	Silent	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:140994648C>A	uc004fbt.2	+	4	1744	c.1458C>A	c.(1456-1458)TCC>TCA	p.S486S	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	486							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GCTCCTCCTCCTCCTCCTCCA	0.478										HNSCC(15;0.026)			51	98					2.01807e-28	2.37503e-28	0.003610	1	0	
IDS	3423	broad.mit.edu	37	X	148577905	148577905	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:148577905G>A	uc011mxe.1	-	6	1049	c.851C>T	c.(850-852)CCG>CTG	p.P284L	IDS_uc011mxf.1_Missense_Mutation_p.P194L|IDS_uc011mxg.1_Missense_Mutation_p.P73L|IDS_uc010nsu.1_Intron|IDS_uc004fcw.3_Missense_Mutation_p.P73L|IDS_uc011mxh.1_Missense_Mutation_p.P284L|IDS_uc011mxi.1_RNA	NM_000202	NP_000193	P22304	IDS_HUMAN	iduronate-2-sulfatase isoform a precursor	284						lysosome	iduronate-2-sulfatase activity|metal ion binding				0	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					TGGACCATACGGCACACTGAT	0.522													20	21					0	0	0.007413	0	0	
CD99L2	83692	broad.mit.edu	37	X	149938842	149938842	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:149938842T>A	uc004fel.2	-	10	774	c.656A>T	c.(655-657)CAG>CTG	p.Q219L	CD99L2_uc004fek.2_RNA|CD99L2_uc004fem.2_Missense_Mutation_p.Q170L|CD99L2_uc004fen.2_Missense_Mutation_p.Q147L|CD99L2_uc004feo.2_RNA|CD99L2_uc011myb.1_Missense_Mutation_p.Q146L	NM_031462	NP_113650	Q8TCZ2	C99L2_HUMAN	CD99 antigen-like 2 isoform E3'-E4'-E3-E4	219	Cytoplasmic (Potential).				cell adhesion	cell junction|integral to membrane				large_intestine(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GTTGAGACCCTCTGCAAAGGG	0.532													3	25					0	0	0.004672	0	0	
PASD1	139135	broad.mit.edu	37	X	150817162	150817162	+	Silent	SNP	T	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:150817162T>A	uc004fev.3	+	9	1037	c.705T>A	c.(703-705)GCT>GCA	p.A235A		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	235	Poly-Ala.					nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ctgctgctgctgctATCTCAG	0.343													24	35					0	0	0.002780	0	0	
CNGA2	1260	broad.mit.edu	37	X	150912810	150912810	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:150912810A>G	uc004fey.1	+	7	2059	c.1835A>G	c.(1834-1836)TAC>TGC	p.Y612C		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	612	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GAAACCTTGTACACTCGCTTT	0.547													8	67					0	0	0.003080	0	0	
HCFC1	3054	broad.mit.edu	37	X	153228859	153228859	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:153228859C>T	uc004fjp.2	-	4	1057	c.529G>A	c.(529-531)GAA>AAA	p.E177K		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	177	Kelch 3.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGCCGTAATTCCAGGATATAT	0.547													12	12					0	0	0.000978	0	0	
FLNA	2316	broad.mit.edu	37	X	153588107	153588107	+	Silent	SNP	G	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:153588107G>A	uc004fkk.2	-	23	4221	c.3972C>T	c.(3970-3972)TAC>TAT	p.Y1324Y	FLNA_uc011mzn.1_5'Flank|FLNA_uc010nuu.1_Silent_p.Y1324Y	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1324	Filamin 11.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CACCCTCCTCGTAAGGCGTGT	0.662													10	19					0	0	0.006214	0	0	
Unknown	0	broad.mit.edu	37	X	155254981	155254981	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrX:155254981C>A	uc004fnx.3	+	9	1191	c.737C>A	c.(736-738)CCT>CAT	p.P246H		NM_182905	NP_878908			WAS protein family homolog 1																		TCCATCCCTCCTGTGCCCCCA	0.652													3	23					0.004672	0.00482621	0.004672	1	0	
USP9Y	8287	broad.mit.edu	37	Y	14848463	14848463	+	Silent	SNP	C	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chrY:14848463C>T	uc004fst.1	+	10	2089	c.1144C>T	c.(1144-1146)CTG>TTG	p.L382L	USP9Y_uc010nwu.1_RNA	NM_004654	NP_004645	O00507	USP9Y_HUMAN	ubiquitin specific protease 9, Y-linked	382					BMP signaling pathway|protein deubiquitination|spermatogenesis|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						GGAAGAATGGCTGACAGCTGA	0.328													7	10					0	0	0.004482	0	0	
PLEKHA6	22874	broad.mit.edu	37	1	204226851	204226851	+	Frame_Shift_Del	DEL	G	-	-	rs138411516		TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr1:204226851delG	uc001hau.2	-	9	1471	c.1154delC	c.(1153-1155)CCGfs	p.P385fs	PLEKHA6_uc009xaw.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xax.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xay.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xaz.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xba.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xbb.1_Frame_Shift_Del_p.P9fs|PLEKHA6_uc009xbc.1_Frame_Shift_Del_p.P9fs	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	385	Pro-rich.									ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			GGCCCAGGGCGGGCTGATCCG	0.662													5	11	---	---	---	---						.
GIPC1	10755	broad.mit.edu	37	19	14593698	14593698	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr19:14593698delC	uc002myt.2	-	4	361	c.91delG	c.(91-93)GAGfs	p.E31fs	GIPC1_uc002myu.2_Frame_Shift_Del_p.E31fs|GIPC1_uc002myv.2_Intron|GIPC1_uc002myw.2_Intron|GIPC1_uc002myx.2_Frame_Shift_Del_p.E31fs|GIPC1_uc002myy.2_Intron	NM_005716	NP_005707	O14908	GIPC1_HUMAN	regulator of G-protein signalling 19 interacting	31					endothelial cell migration|G-protein coupled receptor protein signaling pathway|glutamate secretion|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|protein targeting|regulation of protein stability|regulation of synaptic plasticity|synaptic transmission	cell cortex|dendritic shaft|dendritic spine|membrane fraction|soluble fraction|synaptic vesicle|vesicle membrane	actin binding|myosin binding|protein homodimerization activity|receptor binding				0						GGCCCTGGCTCCCCCACGCCC	0.726													3	5	---	---	---	---						.
Unknown	0	broad.mit.edu	37	5	68766010	68766012	+	RNA	DEL	TTT	-	-			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr5:68766010_68766012delTTT	uc003jwt.1	+	1		c.331_333delTTT								full-length cDNA clone CS0DJ015YI13 of T cells (Jurkat cell line) Cot 10-normalized of Homo sapiens (human).																		CAATAAACACttttttttttttg	0.202													3	4	---	---	---	---						.
FAM8A1	51439	broad.mit.edu	37	6	17608495	17608496	+	Frame_Shift_Ins	INS	-	T	T			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr6:17608495_17608496insT	uc003ncc.2	+	5	1290_1291	c.1167_1168insT	c.(1165-1170)CTGTTTfs	p.L389fs		NM_016255	NP_057339	Q9UBU6	FA8A1_HUMAN	family with sequence similarity 8, member A1	389_390	RDD.|Helical; (Potential).					integral to membrane					0	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.143)	all cancers(50;0.176)|Epithelial(50;0.204)			TCACACTGCTGTTTTTTCAGCA	0.381													81	96	---	---	---	---						.
PHTF2	57157	broad.mit.edu	37	7	77579112	77579112	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-8059-01A-11D-2340-08	TCGA-BR-8059-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	157892e9-83f4-44a9-9ad0-4d309678f251	ffe6b1c1-61fa-4e09-9e32-2784a0b4719e	g.chr7:77579112delA	uc003ugs.3	+	16	2203	c.2077delA	c.(2077-2079)AAAfs	p.K693fs	PHTF2_uc003ugq.3_Frame_Shift_Del_p.K655fs|PHTF2_uc010ldv.2_Intron|PHTF2_uc003ugt.3_Frame_Shift_Del_p.K659fs|PHTF2_uc003ugu.3_Frame_Shift_Del_p.K655fs	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	693					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						AGAAACAAGTAAAAAATATAG	0.323													4	9	---	---	---	---						.
