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
MXRA8	54587	broad.mit.edu	37	1	1289837	1289837	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:1289837G>A	uc001aew.2	-	6	1033	c.1002C>T	c.(1000-1002)AGC>AGT	p.S334S	MXRA8_uc001aex.3_Silent_p.S334S|MXRA8_uc001aey.3_Silent_p.S334S|MXRA8_uc010nyl.1_Silent_p.S334S|MXRA8_uc001aez.2_Silent_p.S233S|MXRA8_uc001afa.2_Silent_p.S325S	NM_032348	NP_115724	Q9BRK3	MXRA8_HUMAN	matrix-remodelling associated 8 precursor	334	Extracellular (Potential).					integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		AGTGGGCTCGGCTCTCGGGGA	0.682													6	45					0	0	0.001168	0	0	
CCNL2	81669	broad.mit.edu	37	1	1328774	1328774	+	Splice_Site	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:1328774A>G	uc001afi.2	-	5	691	c.659_splice	c.e5+1	p.W220_splice	CCNL2_uc010nym.1_5'Flank|CCNL2_uc001aff.1_5'Flank|CCNL2_uc001afg.1_Splice_Site|CCNL2_uc001afh.2_Splice_Site_p.W220_splice|CCNL2_uc001afj.2_Splice_Site_p.W220_splice|CCNL2_uc001afk.2_Splice_Site_p.W220_splice	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A						regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		AGCTCAACTCACCATGAGGTC	0.498													13	80					0	0	0.001855	0	0	
ACTRT2	140625	broad.mit.edu	37	1	2939080	2939080	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:2939080C>T	uc001ajz.2	+	1	1035	c.830C>T	c.(829-831)TCG>TTG	p.S277L		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	277						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		CCCGGGCTCTCGAATATGGTC	0.642													22	92					0	0	0.003330	0	0	
ARHGEF16	27237	broad.mit.edu	37	1	3390004	3390004	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:3390004G>A	uc001akg.3	+	8	1471	c.1223G>A	c.(1222-1224)CGG>CAG	p.R408Q	ARHGEF16_uc001aki.2_Missense_Mutation_p.R120Q|ARHGEF16_uc001akj.2_Missense_Mutation_p.R120Q|ARHGEF16_uc009vli.1_Missense_Mutation_p.R112Q|ARHGEF16_uc010nzh.1_Missense_Mutation_p.R112Q	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	408	DH.|Required for RHOG activation and mediates interaction with EPHA2.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		ATTGAGAGGCGGCCGGCGTGC	0.647													20	61					0	0	0.010504	0	0	
CHD5	26038	broad.mit.edu	37	1	6215730	6215730	+	Silent	SNP	G	A	A	rs140138233		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:6215730G>A	uc001amb.1	-	4	535	c.435C>T	c.(433-435)GAC>GAT	p.D145D		NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	145					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		GGTAGTCCACGTCGTCCAGGC	0.617													10	42					0	0	0.008291	0	0	
NOL9	79707	broad.mit.edu	37	1	6585974	6585974	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:6585974A>G	uc001ans.2	-	12	2068	c.2049T>C	c.(2047-2049)CCT>CCC	p.P683P	NOL9_uc010nzs.1_RNA	NM_024654	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	683					maturation of 5.8S rRNA	nucleolus	ATP binding|polynucleotide 5'-hydroxyl-kinase activity|RNA binding			skin(1)	1	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		GTGCCTCCTCAGGTTCTCTTG	0.423													29	117					0	0	0.007291	0	0	
THAP3	90326	broad.mit.edu	37	1	6692557	6692557	+	Splice_Site	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:6692557T>C	uc001aoc.2	+	5	597	c.438_splice	c.e5+2	p.Q146_splice	THAP3_uc001aod.2_Splice_Site_p.Q145_splice|THAP3_uc001aoe.1_Splice_Site_p.Q153_splice			Q8WTV1	THAP3_HUMAN	RecName: Full=THAP domain-containing protein 3;								DNA binding|metal ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		GTAAAACAGGTAAGACTGAGT	0.547													5	29					0	0	0.001168	0	0	
PIK3CD	5293	broad.mit.edu	37	1	9780209	9780209	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:9780209G>A	uc001aqb.3	+	11	1587	c.1379G>A	c.(1378-1380)CGC>CAC	p.R460H	PIK3CD_uc010oaf.1_Missense_Mutation_p.R460H|PIK3CD_uc001aqe.3_Missense_Mutation_p.R425H	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	460					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		GGCACTGTGCGCAGTAACCCC	0.637													11	45					0	0	0.010729	0	0	
KIF1B	23095	broad.mit.edu	37	1	10318557	10318557	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:10318557G>A	uc001aqx.3	+	4	392	c.190G>A	c.(190-192)GAT>AAT	p.D64N	KIF1B_uc001aqv.3_Missense_Mutation_p.D64N|KIF1B_uc001aqw.3_Missense_Mutation_p.D64N|KIF1B_uc001aqy.2_Missense_Mutation_p.D64N|KIF1B_uc001aqz.2_Missense_Mutation_p.D64N|KIF1B_uc001ara.2_Missense_Mutation_p.D64N|KIF1B_uc001arb.2_Missense_Mutation_p.D64N|KIF1B_uc009vmt.2_RNA	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	64	Kinesin-motor.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		ACAGCCCGAAGATCCCTGTTT	0.358													10	53					0	0	0.008291	0	0	
PTCHD2	57540	broad.mit.edu	37	1	11579854	11579854	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:11579854G>A	uc001ash.3	+	9	2255	c.2117G>A	c.(2116-2118)CGC>CAC	p.R706H	PTCHD2_uc001asi.1_Missense_Mutation_p.R706H	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	706	Cytoplasmic (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		ACGGGCAGCCGCGGCCATCTC	0.667													11	73					0	0	0.010729	0	0	
FBXO44	93611	broad.mit.edu	37	1	11718602	11718602	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:11718602G>A	uc001asm.2	+	4	531	c.405G>A	c.(403-405)AAG>AAA	p.K135K	FBXO44_uc001ask.2_Intron|FBXO44_uc010oaq.1_3'UTR|FBXO44_uc001asl.2_Silent_p.K135K|FBXO44_uc001asn.2_Intron|FBXO44_uc010oar.1_Missense_Mutation_p.V126I|FBXO44_uc010oas.1_Intron	NM_033182	NP_149438	Q9H4M3	FBX44_HUMAN	F-box protein 44 isoform 1	135	FBA.				protein catabolic process	SCF ubiquitin ligase complex	protein binding			ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.41e-06)|COAD - Colon adenocarcinoma(227;0.000255)|BRCA - Breast invasive adenocarcinoma(304;0.0003)|Kidney(185;0.000758)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGCCTCAAGTCCCAGGTGG	0.657													14	30					0	0	0.001855	0	0	
VPS13D	55187	broad.mit.edu	37	1	12405567	12405567	+	Splice_Site	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:12405567G>A	uc001atv.2	+	43	9162	c.9021_splice	c.e43+1	p.T3007_splice	VPS13D_uc001atw.2_Splice_Site_p.T2982_splice|VPS13D_uc001atx.2_Splice_Site_p.T2194_splice	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1						protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TTCCTCTACGGTGTGTGACAT	0.433													20	58					0	0	0.007413	0	0	
PRAMEF11	440560	broad.mit.edu	37	1	12885289	12885289	+	Silent	SNP	G	T	T	rs148273194	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:12885289G>T	uc001auk.2	-	4	1018	c.822C>A	c.(820-822)CTC>CTA	p.L274L		NM_001146344	NP_001139816	O60813	PRA11_HUMAN	PRAME family member 11	274	LRR 3.										0						GGCACTGGGAGAGATGCTTCA	0.458													6	0					8.12818e-05	8.54791e-05	0.001984	1	0	
LOC440563	440563	broad.mit.edu	37	1	13183433	13183433	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:13183433C>T	uc010obg.1	-	1	535	c.440G>A	c.(439-441)CGC>CAC	p.R147H		NM_001136561	NP_001130033	B2RXH8	B2RXH8_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	147						ribonucleoprotein complex	nucleic acid binding|nucleotide binding				0						TCCTGATATGCGCTGGTGTTT	0.502													32	381					0	0	0.009535	0	0	
PRDM2	7799	broad.mit.edu	37	1	14105136	14105136	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:14105136A>T	uc001avi.2	+	8	1702	c.846A>T	c.(844-846)GAA>GAT	p.E282D	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.E282D|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.E39D|PRDM2_uc001avk.2_Missense_Mutation_p.E81D|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	282	Asp/Glu-rich (acidic).			EDEEEEEDDDDDELEDEG -> VGGGGGVVVVVSWKARGE (in Ref. 4; AAA87023).		Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		aagaagaagaagatgatgatg	0.259													7	37					0	0	0.001984	0	0	
SPEN	23013	broad.mit.edu	37	1	16259385	16259385	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:16259385C>T	uc001axk.1	+	11	6854	c.6650C>T	c.(6649-6651)GCG>GTG	p.A2217V	SPEN_uc010obp.1_Missense_Mutation_p.A2176V	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2217	RID.|Interaction with MSX2 (By similarity).				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GAGCTGGCTGCGGCCATCGGC	0.577													11	72					0	0	0.008291	0	0	
PADI3	51702	broad.mit.edu	37	1	17601227	17601227	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:17601227C>T	uc001bai.2	+	11	1293	c.1253C>T	c.(1252-1254)GCC>GTC	p.A418V		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	418					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	CCAGTGGTGGCCAATGGGAAA	0.607											OREG0013148	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	16					0	0	0.009096	0	0	
PADI3	51702	broad.mit.edu	37	1	17609502	17609502	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:17609502T>C	uc001bai.2	+	16	1963	c.1923T>C	c.(1921-1923)CAT>CAC	p.H641H		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	641					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	ACATGCTGCATGGGGAGGTGC	0.592													6	38					0	0	0.001168	0	0	
PADI6	353238	broad.mit.edu	37	1	17727905	17727905	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:17727905G>A	uc001bak.1	+	17	2056	c.2056G>A	c.(2056-2058)GCC>ACC	p.A686T		NM_207421	NP_997304	Q6TGC4	PADI6_HUMAN	peptidylarginine deiminase type 6	678				A -> T (in Ref. 1; AAR38850).	peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;7.59e-06)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.0134)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	GGTGCCCTTTGCCTTCAAATG	0.572													5	21					0	0	0.000602	0	0	
UBR4	23352	broad.mit.edu	37	1	19467976	19467976	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:19467976C>A	uc001bbi.2	-	57	8357	c.8353G>T	c.(8353-8355)GGC>TGC	p.G2785C	UBR4_uc001bbk.1_Missense_Mutation_p.G467C	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2785					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GAGGGGTTGCCATTGTTGACA	0.557													10	50					6.40141e-05	6.75882e-05	0.010729	1	0	
UBR4	23352	broad.mit.edu	37	1	19488197	19488197	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:19488197G>A	uc001bbi.2	-	37	5065	c.5061C>T	c.(5059-5061)GGC>GGT	p.G1687G	UBR4_uc001bbm.1_Silent_p.G898G	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	1687	UBR-type.				interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		AGACACCCACGCCATCCACCA	0.483													5	36					0	0	0.000602	0	0	
PQLC2	54896	broad.mit.edu	37	1	19652849	19652849	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:19652849C>T	uc001bby.2	+	6	845	c.493C>T	c.(493-495)CGG>TGG	p.R165W	PQLC2_uc001bbz.2_Missense_Mutation_p.R100W|PQLC2_uc001bca.2_Missense_Mutation_p.R165W|PQLC2_uc001bcb.2_Missense_Mutation_p.R54W|PQLC2_uc001bcc.2_Missense_Mutation_p.R54W	NM_017765	NP_060235	Q6ZP29	PQLC2_HUMAN	PQ loop repeat containing 2 isoform 1	165	Extracellular (Potential).					integral to membrane					0		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;1.89e-05)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CTTCCGGGGGCGGGCGCTCCT	0.692													3	9					0	0	0.004672	0	0	
HP1BP3	50809	broad.mit.edu	37	1	21097459	21097459	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:21097459T>C	uc001bdw.1	-	6	758	c.618A>G	c.(616-618)GCA>GCG	p.A206A	HP1BP3_uc001bdv.1_Silent_p.A168A|HP1BP3_uc010odh.1_Silent_p.A168A|HP1BP3_uc001bdy.1_Silent_p.A206A|HP1BP3_uc001bdz.2_RNA|HP1BP3_uc001bea.2_Silent_p.A205A|HP1BP3_uc010odg.1_Silent_p.A54A	NM_016287	NP_057371	Q5SSJ5	HP1B3_HUMAN	HP1-BP74	206	H15 1.				nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)		CTCTTTTCAGTGCTTGTTTAA	0.368													10	50					0	0	0.006214	0	0	
LDLRAD2	401944	broad.mit.edu	37	1	22140919	22140919	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:22140919G>A	uc001bfg.1	+	2	301	c.114G>A	c.(112-114)ACG>ACA	p.T38T		NM_001013693	NP_001013715	Q5SZI1	LRAD2_HUMAN	low density lipoprotein receptor class A domain	38	Extracellular (Potential).					integral to membrane	receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.00166)|all_lung(284;0.00172)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;5.2e-26)|COAD - Colon adenocarcinoma(152;1.13e-05)|GBM - Glioblastoma multiforme(114;1.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00598)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)		GCGGGCAGACGTGGCAGGGGG	0.468													6	27					0	0	0.001168	0	0	
HSPG2	3339	broad.mit.edu	37	1	22188329	22188329	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:22188329G>T	uc001bfj.2	-	39	4916	c.4876C>A	c.(4876-4878)CGC>AGC	p.R1626S	HSPG2_uc009vqd.2_Missense_Mutation_p.R1627S	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	1626	Laminin EGF-like 11.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TCACAGGTGCGGGAAAACCTG	0.587													4	17					0.00024832	0.000259853	0.009096	1	0	
ASAP3	55616	broad.mit.edu	37	1	23758199	23758199	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:23758199C>T	uc001bha.2	-	23	2660	c.2536G>A	c.(2536-2538)GTC>ATC	p.V846I	ASAP3_uc001bgy.1_Missense_Mutation_p.V350I|ASAP3_uc001bgz.1_RNA|ASAP3_uc010odz.1_Missense_Mutation_p.V736I|ASAP3_uc010oea.1_Missense_Mutation_p.V837I|ASAP3_uc001bhb.2_Intron	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	846					regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						CTGAATCTGACGGGGAGGTAC	0.398													20	65					0	0	0.010504	0	0	
C1orf63	57035	broad.mit.edu	37	1	25571717	25571717	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:25571717G>T	uc001bjw.2	-	3	848	c.596C>A	c.(595-597)GCT>GAT	p.A199D		NM_020317	NP_064713	Q9BUV0	CA063_HUMAN	hypothetical protein LOC57035	199										pancreas(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.9e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000333)|BRCA - Breast invasive adenocarcinoma(304;0.000443)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000932)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TCTGAGACTAGCTGGCAAGTC	0.398													14	68					0.000219431	0.00022985	0.002450	1	0	
MAP3K6	9064	broad.mit.edu	37	1	27687240	27687240	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:27687240C>T	uc001bny.1	-	15	2259	c.2010G>A	c.(2008-2010)ACG>ACA	p.T670T	MAP3K6_uc009vsw.1_Silent_p.T662T|MAP3K6_uc001bnz.1_Silent_p.T193T	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	670	Protein kinase.				activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		TGCGCACCCTCGTGTGGCGAT	0.701													3	17					0	0	0.009096	0	0	
MATN1	4146	broad.mit.edu	37	1	31189718	31189718	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:31189718C>T	uc001brz.2	-	4	743	c.709G>A	c.(709-711)GTG>ATG	p.V237M	uc001bsb.1_5'Flank|MATN1_uc001bsa.1_Missense_Mutation_p.V155M	NM_002379	NP_002370	P21941	MATN1_HUMAN	matrilin 1, cartilage matrix protein precursor	237	EGF-like.				protein complex assembly	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			central_nervous_system(1)	1		Colorectal(325;0.00792)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)|Ovarian(437;0.0563)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-05)|COAD - Colon adenocarcinoma(152;0.000726)|STAD - Stomach adenocarcinoma(196;0.0183)|READ - Rectum adenocarcinoma(331;0.0649)		CTGATGCACACCTGCTCACAG	0.592													3	13					0	0	0.004672	0	0	
BAI2	576	broad.mit.edu	37	1	32207516	32207516	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:32207516C>T	uc001btn.2	-	9	1824	c.1470G>A	c.(1468-1470)ACG>ACA	p.T490T	BAI2_uc010ogo.1_Silent_p.T132T|BAI2_uc010ogp.1_Silent_p.T423T|BAI2_uc010ogq.1_Silent_p.T490T|BAI2_uc001bto.2_Silent_p.T490T|BAI2_uc001btq.1_Silent_p.T423T|BAI2_uc010ogr.1_Silent_p.T423T	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	490	TSP type-1 4.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		CTGTGTCACACGTCTTAGAGC	0.642													7	46					0	0	0.001984	0	0	
KPNA6	23633	broad.mit.edu	37	1	32623924	32623924	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:32623924G>A	uc001bug.2	+	5	476	c.388G>A	c.(388-390)GTG>ATG	p.V130M	KPNA6_uc001buh.2_Translation_Start_Site|KPNA6_uc010ogx.1_Missense_Mutation_p.V127M|KPNA6_uc010ogy.1_Missense_Mutation_p.V135M|KPNA6_uc009vtz.2_Missense_Mutation_p.V69M	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	130	ARM 2.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GGATCGGTTCGTGGAGTTTCT	0.373													30	106					0	0	0.010818	0	0	
ZNF362	149076	broad.mit.edu	37	1	33764618	33764618	+	Missense_Mutation	SNP	G	A	A	rs35620942	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:33764618G>A	uc001bxc.1	+	9	1404	c.1234G>A	c.(1234-1236)GGC>AGC	p.G412S		NM_152493	NP_689706	Q5T0B9	ZN362_HUMAN	zinc finger protein 362	412					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				GGAGTCCCCCGGCATCCCGGT	0.662											OREG0013343	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	48					0	0	0.000602	0	0	
CSMD2	114784	broad.mit.edu	37	1	33985245	33985245	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:33985245G>A	uc001bxn.1	-	69	10366	c.10337C>T	c.(10336-10338)GCT>GTT	p.A3446V	CSMD2_uc001bxm.1_Missense_Mutation_p.A3590V	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3446	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CTCGTGGCCAGCATAGCCATT	0.542													33	174					0	0	0.013726	0	0	
NCDN	23154	broad.mit.edu	37	1	36026370	36026370	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:36026370C>T	uc001bza.2	+	4	745	c.618C>T	c.(616-618)GCC>GCT	p.A206A	KIAA0319L_uc010ohw.1_5'Flank|NCDN_uc001bzb.2_Silent_p.A206A|NCDN_uc001bzc.2_Silent_p.A189A	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	206					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TGGCTGCTGCCGAGACACAGT	0.637													10	38					0	0	0.006214	0	0	
NCDN	23154	broad.mit.edu	37	1	36028834	36028834	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:36028834G>A	uc001bza.2	+	6	1544	c.1417G>A	c.(1417-1419)GTT>ATT	p.V473I	NCDN_uc001bzb.2_Missense_Mutation_p.V473I|NCDN_uc001bzc.2_Missense_Mutation_p.V456I	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	473					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CCACCTGACCGTTGAAGATGG	0.582													4	29					0	0	0.009096	0	0	
MACF1	23499	broad.mit.edu	37	1	39910508	39910508	+	Splice_Site	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:39910508G>A	uc010oiu.1	+	45	15065	c.14934_splice	c.e45+1	p.K4978_splice	MACF1_uc010ois.1_Splice_Site_p.K4476_splice	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker						cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGAAAGAAAGGTACAGTGTAT	0.413													4	45					0	0	0.001168	0	0	
NT5C1A	84618	broad.mit.edu	37	1	40124850	40124850	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:40124850A>G	uc001cdq.1	-	6	1050	c.1050T>C	c.(1048-1050)GGT>GGC	p.G350G		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	350					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TCTGTGCCACACCATAAGGCA	0.582													12	50					0	0	0.010729	0	0	
YBX1	4904	broad.mit.edu	37	1	43166532	43166532	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:43166532A>C	uc001chs.2	+	7	992	c.821A>C	c.(820-822)CAG>CCG	p.Q274P		NM_004559	NP_004550	P67809	YBOX1_HUMAN	nuclease sensitive element binding protein 1	274					CRD-mediated mRNA stabilization|negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|positive regulation of cell division|transcription from RNA polymerase II promoter	CRD-mediated mRNA stability complex|extracellular region|histone pre-mRNA 3'end processing complex|nucleoplasm|stress granule|U12-type spliceosomal complex	double-stranded DNA binding|protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			ovary(4)|upper_aerodigestive_tract(1)	5	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ACCCAAGGTCAGCAGCCACCT	0.517													6	41					0	0	0.001168	0	0	
C1orf50	79078	broad.mit.edu	37	1	43240471	43240471	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:43240471C>A	uc001cia.3	+	4	413	c.346C>A	c.(346-348)CCT>ACT	p.P116T		NM_024097	NP_077002	Q9BV19	CA050_HUMAN	hypothetical protein LOC79078	116										ovary(1)	1	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AGTGAAAAAACCTGGCAACAT	0.373													16	83					2.23348e-06	2.40372e-06	0.004007	1	0	
PTPRF	5792	broad.mit.edu	37	1	44069443	44069443	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:44069443G>A	uc001cjr.2	+	16	2960	c.2620G>A	c.(2620-2622)GAC>AAC	p.D874N	PTPRF_uc001cjs.2_Missense_Mutation_p.D865N|PTPRF_uc001cju.2_Intron|PTPRF_uc009vwt.2_Missense_Mutation_p.D434N|PTPRF_uc001cjv.2_Missense_Mutation_p.D334N|PTPRF_uc001cjw.2_Missense_Mutation_p.D100N	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	874	Extracellular (Potential).|Fibronectin type-III 6.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CGGCAAGGATGACCAGCACTT	0.632													11	58					0	0	0.008291	0	0	
SLC6A9	6536	broad.mit.edu	37	1	44482788	44482788	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:44482788C>T	uc001cll.2	-	1	210	c.18G>A	c.(16-18)ACG>ACA	p.T6T	SLC6A9_uc009vxe.2_5'Flank|SLC6A9_uc010okm.1_Intron|SLC6A9_uc001clm.2_Silent_p.T6T|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Silent_p.T6T|SLC6A9_uc001cln.2_Intron|SLC6A9_uc010oko.1_Intron|SLC6A9_uc010okp.1_Intron	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	6	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	TCGCAGCCCGCGTGTCTCCGC	0.652													5	14					0	0	0.000602	0	0	
DMAP1	55929	broad.mit.edu	37	1	44680454	44680454	+	Missense_Mutation	SNP	C	T	T	rs34697342	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:44680454C>T	uc001clq.1	+	4	357	c.277C>T	c.(277-279)CGG>TGG	p.R93W	DMAP1_uc010okq.1_Missense_Mutation_p.R119W|DMAP1_uc010okr.1_Missense_Mutation_p.R93W|DMAP1_uc010oks.1_Missense_Mutation_p.R93W|DMAP1_uc010okt.1_Missense_Mutation_p.R93W|DMAP1_uc001clr.1_Missense_Mutation_p.R93W|DMAP1_uc001cls.1_Missense_Mutation_p.R93W|DMAP1_uc010oku.1_Missense_Mutation_p.R93W	NM_001034024	NP_001029196	Q9NPF5	DMAP1_HUMAN	DNA methyltransferase 1 associated protein 1	93					DNA methylation|histone H2A acetylation|histone H4 acetylation|negative regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex	DNA binding|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					CAAGAAGGTGCGGCCTTGGAA	0.612													9	51					0	0	0.006214	0	0	
ERI3	79033	broad.mit.edu	37	1	44713617	44713617	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:44713617C>T	uc001clt.2	-	8	1166	c.925G>A	c.(925-927)GGC>AGC	p.G309S	ERI3_uc010okv.1_Missense_Mutation_p.G132S|ERI3_uc009vxg.2_Missense_Mutation_p.G337S|ERI3_uc010okw.1_Missense_Mutation_p.G231S|ERI3_uc001clu.2_Intron	NM_024066	NP_076971	O43414	ERI3_HUMAN	prion protein interacting protein	309	Exonuclease.					intracellular	exonuclease activity|metal ion binding|nucleic acid binding			ovary(2)|large_intestine(1)	3						TGACCAATGCCGCTGTGGGGC	0.602													4	41					0	0	0.000602	0	0	
HPDL	84842	broad.mit.edu	37	1	45793416	45793416	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:45793416T>C	uc001cne.2	+	1	872	c.596T>C	c.(595-597)CTG>CCG	p.L199P		NM_032756	NP_116145	Q96IR7	HPDL_HUMAN	glyoxalase domain containing 1	199					aromatic amino acid family metabolic process		4-hydroxyphenylpyruvate dioxygenase activity|metal ion binding				0	Acute lymphoblastic leukemia(166;0.155)					GATCCCGAGCTGGGCCTCGAA	0.642													11	38					0	0	0.008291	0	0	
FAAH	2166	broad.mit.edu	37	1	46876093	46876093	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:46876093G>A	uc001cpu.2	+	10	1281	c.1199G>A	c.(1198-1200)TGC>TAC	p.C400Y	FAAH_uc001cpv.2_RNA	NM_001441	NP_001432	O00519	FAAH1_HUMAN	fatty acid amide hydrolase	400	Cytoplasmic (By similarity).				fatty acid catabolic process	cytoplasm|cytoskeleton|endomembrane system|integral to membrane|organelle membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|fatty acid amide hydrolase activity			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(166;0.155)				Propofol(DB00818)|Thiopental(DB00599)	GTGGACCCCTGCCTGGGGGAC	0.592													54	200					0	0	0.014410	0	0	
C1orf87	127795	broad.mit.edu	37	1	60506705	60506705	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:60506705C>T	uc001czs.1	-	4	533	c.441G>A	c.(439-441)TGG>TGA	p.W147*		NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	147							calcium ion binding			ovary(1)|breast(1)	2						GTTCCAAGGACCAGTCTCTAA	0.478													18	74					0	0	0.008871	0	0	
USP1	7398	broad.mit.edu	37	1	62916034	62916034	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:62916034G>A	uc001daj.1	+	9	2068	c.1740G>A	c.(1738-1740)GCG>GCA	p.A580A	USP1_uc001dak.1_Silent_p.A580A|USP1_uc001dal.1_Silent_p.A580A	NM_001017415	NP_001017415	O94782	UBP1_HUMAN	ubiquitin specific protease 1	580					DNA repair|monoubiquitinated protein deubiquitination|regulation of DNA repair|response to UV|ubiquitin-dependent protein catabolic process	nucleoplasm	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1		all_neural(321;0.0281)		BRCA - Breast invasive adenocarcinoma(111;8.01e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00245)|OV - Ovarian serous cystadenocarcinoma(397;0.0535)		GATTATTTGCGGTTGTGATGC	0.383													17	83					0	0	0.006122	0	0	
LRRIQ3	127255	broad.mit.edu	37	1	74507249	74507249	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:74507249C>T	uc001dfy.3	-	7	1558	c.1366G>A	c.(1366-1368)GCT>ACT	p.A456T	LRRIQ3_uc001dfz.3_Intron	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	456										ovary(2)	2						TCATTAACAGCTACTCTAACT	0.318													15	80					0	0	0.004007	0	0	
LRRIQ3	127255	broad.mit.edu	37	1	74649285	74649285	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:74649285T>C	uc001dfy.3	-	2	276	c.84A>G	c.(82-84)AAA>AAG	p.K28K	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	28										ovary(2)	2						aaacaAAATCTTTTTGACCTT	0.179													9	24					0	0	0.004482	0	0	
COL24A1	255631	broad.mit.edu	37	1	86591529	86591529	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:86591529G>A	uc001dlj.2	-	3	532	c.490C>T	c.(490-492)CAC>TAC	p.H164Y	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.H164Y	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	164	TSP N-terminal.|Laminin G-like.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		GCAAATGAGTGCCATTGCTCA	0.363													7	47					0	0	0.001984	0	0	
LMO4	8543	broad.mit.edu	37	1	87805253	87805253	+	Missense_Mutation	SNP	G	A	A	rs149550347		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:87805253G>A	uc001dmi.2	+	3	1051	c.271G>A	c.(271-273)GGA>AGA	p.G91R	LMO4_uc001dmj.2_Missense_Mutation_p.G91R	NM_006769	NP_006760	P61968	LMO4_HUMAN	LIM domain only 4	91	LIM zinc-binding 2.				neural tube closure|transcription from RNA polymerase II promoter	transcription factor complex	sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding				0		Lung NSC(277;0.179)		all cancers(265;0.00456)|Epithelial(280;0.0148)|BRCA - Breast invasive adenocarcinoma(282;0.153)		CAGCGCTTGCGGACAGTCGAT	0.383													6	28					0	0	0.001168	0	0	
LPPR4	9890	broad.mit.edu	37	1	99772446	99772446	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:99772446C>T	uc001dse.2	+	7	2278	c.2172C>T	c.(2170-2172)CGC>CGT	p.R724R	LPPR4_uc010oue.1_Silent_p.R666R	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	724							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		CTTCTTCCCGCGACTCCACCC	0.507													10	45					0	0	0.006214	0	0	
CLCC1	23155	broad.mit.edu	37	1	109484090	109484090	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:109484090C>T	uc001dwe.1	-	7	825	c.733G>A	c.(733-735)GCC>ACC	p.A245T	AKNAD1_uc010ovb.1_Intron|CLCC1_uc001dwf.1_Missense_Mutation_p.A245T|CLCC1_uc001dwg.1_Missense_Mutation_p.A195T|CLCC1_uc009wes.1_Missense_Mutation_p.A124T|CLCC1_uc009wet.1_Intron	NM_001048210	NP_001041675	Q96S66	CLCC1_HUMAN	Mid-1-related chloride channel 1 isoform 1	245						endoplasmic reticulum|Golgi apparatus|integral to membrane|nucleus				liver(1)	1		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.231)		TCCATCTTGGCGACTTCAGCC	0.468													9	44					0	0	0.004482	0	0	
GSTM3	2947	broad.mit.edu	37	1	110280306	110280306	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:110280306C>T	uc001dyo.2	-	7	750	c.440G>A	c.(439-441)GGG>GAG	p.G147E	GSTM3_uc001dyp.2_Missense_Mutation_p.G144E|GSTM3_uc010ovv.1_Missense_Mutation_p.G147E	NM_000849	NP_000840	P21266	GSTM3_HUMAN	glutathione S-transferase mu 3	147	GST C-terminal.			G -> W (in Ref. 1; AAA60964).	establishment of blood-nerve barrier|glutathione metabolic process|response to estrogen stimulus	cytoplasm	glutathione transferase activity|identical protein binding				0		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Colorectal(144;0.0339)|Lung(183;0.0426)|all cancers(265;0.113)|Epithelial(280;0.125)|COAD - Colon adenocarcinoma(174;0.134)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	TGAGAATTTCCCCAGAAACAT	0.438													24	154					0	0	0.003954	0	0	
DENND2C	163259	broad.mit.edu	37	1	115142883	115142883	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:115142883G>A	uc001efd.1	-	15	2749	c.2047C>T	c.(2047-2049)CGG>TGG	p.R683W	DENND2C_uc001eez.2_Intron|DENND2C_uc001efc.1_Missense_Mutation_p.R626W	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	683	DENN.									skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCACAGACCCGGATGAGATGA	0.423													15	58					0	0	0.003163	0	0	
IGSF3	3321	broad.mit.edu	37	1	117156549	117156549	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:117156549G>A	uc001egr.1	-	4	1375	c.670C>T	c.(670-672)CTG>TTG	p.L224L	IGSF3_uc001egq.1_Silent_p.L224L	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	224	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GTCCTCCCCAGCTTGTCCAGC	0.622													7	28					0	0	0.003080	0	0	
CD101	9398	broad.mit.edu	37	1	117559831	117559831	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:117559831A>G	uc010oxb.1	+	5	1406	c.1348A>G	c.(1348-1350)ATC>GTC	p.I450V	CD101_uc009whd.2_Missense_Mutation_p.I450V|CD101_uc010oxc.1_Missense_Mutation_p.I450V|CD101_uc010oxd.1_Missense_Mutation_p.I388V	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	450	Extracellular (Potential).|Ig-like C2-type 4.				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CTGGTGGCACATCCCACGGGA	0.572													7	40					0	0	0.001984	0	0	
HIST2H2BA	337875	broad.mit.edu	37	1	120906302	120906302	+	RNA	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:120906302G>A	uc001eio.2	+	1		c.269G>A				NR_027337				Homo sapiens histone cluster 2, H2ba, mRNA (cDNA clone IMAGE:40032208).												0						TACAACAAGCGCTCCACCATC	0.657													11	59					0	0	0.003163	0	0	
CA14	23632	broad.mit.edu	37	1	150234016	150234016	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:150234016C>T	uc001etx.2	+	3	544	c.235C>T	c.(235-237)CTG>TTG	p.L79L		NM_012113	NP_036245	Q9ULX7	CAH14_HUMAN	carbonic anhydrase XIV precursor	79	Extracellular (Potential).					integral to membrane	carbonate dehydratase activity|metal ion binding			ovary(1)	1	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GCCTTTGGACCTGCACAACAA	0.473													11	28					0	0	0.013537	0	0	
SEMA6C	10500	broad.mit.edu	37	1	151106915	151106915	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:151106915G>T	uc001ewu.2	-	18	2021	c.1721C>A	c.(1720-1722)GCT>GAT	p.A574D	SEMA6C_uc001ewv.2_Missense_Mutation_p.A574D|SEMA6C_uc001eww.2_Missense_Mutation_p.A534D|SEMA6C_uc010pcq.1_Missense_Mutation_p.A574D	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	574	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			ACTCCCAGTAGCTCCATCTAT	0.527													6	6					0.00198382	0.00204364	0.001984	1	0	
SEMA6C	10500	broad.mit.edu	37	1	151108068	151108068	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:151108068G>A	uc001ewu.2	-	14	1732	c.1432C>T	c.(1432-1434)CGG>TGG	p.R478W	SEMA6C_uc001ewv.2_Missense_Mutation_p.R478W|SEMA6C_uc001eww.2_Missense_Mutation_p.R438W|SEMA6C_uc010pcq.1_Missense_Mutation_p.R478W	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	478	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			AGGCCTCACCGGGCAGGGCTG	0.597													21	92					0	0	0.012319	0	0	
LINGO4	339398	broad.mit.edu	37	1	151773687	151773687	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:151773687C>T	uc001ezf.1	-	2	1684	c.1494G>A	c.(1492-1494)TGG>TGA	p.W498*		NM_001004432	NP_001004432	Q6UY18	LIGO4_HUMAN	leucine rich repeat and Ig domain containing 4	498	Extracellular (Potential).|Ig-like C2-type.					integral to membrane				large_intestine(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			TGACTTCCAGCCAGGTCCTCA	0.567													29	159					0	0	0.007291	0	0	
TCHH	7062	broad.mit.edu	37	1	152080052	152080052	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:152080052G>A	uc001ezp.2	-	2	5641	c.5641C>T	c.(5641-5643)CGG>TGG	p.R1881W	TCHH_uc009wne.1_Missense_Mutation_p.R1881W	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1881	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTTCTTCCCGTAATTTCCTT	0.562													23	75					0	0	0.012319	0	0	
FLG	2312	broad.mit.edu	37	1	152276179	152276179	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:152276179C>A	uc001ezu.1	-	3	11219	c.11183G>T	c.(11182-11184)GGG>GTG	p.G3728V		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3728	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGTACTGGGCCCAGCCCGTCC	0.607									Ichthyosis				54	229					9.52127e-25	1.07725e-24	0.014410	1	0	
FLG	2312	broad.mit.edu	37	1	152277587	152277587	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:152277587C>T	uc001ezu.1	-	3	9811	c.9775G>A	c.(9775-9777)GAA>AAA	p.E3259K		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3259	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTCTGTCTTCGTGATGGGAC	0.582									Ichthyosis				81	290					0	0	0.014410	0	0	
LCE1C	353133	broad.mit.edu	37	1	152777656	152777656	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:152777656G>A	uc001fap.1	-	2	350	c.299C>T	c.(298-300)TCG>TTG	p.S100L		NM_178351	NP_848128	Q5T751	LCE1C_HUMAN	late cornified envelope 1C	100	Gly-rich.				keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGAGCCCCCCGAGGGCTGGCT	0.667													10	40					0	0	0.003163	0	0	
S100A7A	338324	broad.mit.edu	37	1	153390574	153390574	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:153390574G>T	uc001fbt.1	+	2	73	c.16G>T	c.(16-18)GCT>TCT	p.A6S		NM_176823	NP_789793	Q86SG5	S1A7A_HUMAN	S100 calcium binding protein A7-like 1	6						cytoplasm	calcium ion binding			skin(1)	1	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			CAACACTCAAGCTGAGAGGTC	0.418													13	99					0.00136819	0.0014122	0.013537	1	0	
S100A6	6277	broad.mit.edu	37	1	153507253	153507253	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:153507253C>A	uc001fbw.1	-	3	506	c.192G>T	c.(190-192)AAG>AAT	p.K64N		NM_014624	NP_055439	P06703	S10A6_HUMAN	S100 calcium-binding protein A6	64	EF-hand 2.|2.				axonogenesis|positive regulation of fibroblast proliferation|signal transduction	cytosol|extrinsic to internal side of plasma membrane|nuclear envelope|perinuclear region of cytoplasm|ruffle	calcium ion binding|calcium-dependent protein binding|protein homodimerization activity|S100 beta binding|tropomyosin binding			ovary(1)	1	all_lung(78;1.66e-32)|Lung NSC(65;5.71e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCTCCTGGTCCTTGTTCCGGT	0.478													5	73					1.024e-07	1.11911e-07	0.000602	1	0	
DENND4B	9909	broad.mit.edu	37	1	153907390	153907390	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:153907390G>A	uc001fdd.1	-	18	3020	c.2619C>T	c.(2617-2619)CGC>CGT	p.R873R	uc001fdc.1_RNA	NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	873										ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GCTTGGCCCAGCGCAGACGCC	0.502													12	111					0	0	0.002450	0	0	
NUP210L	91181	broad.mit.edu	37	1	154125250	154125250	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:154125250G>A	uc001fdw.2	-	2	374	c.302C>T	c.(301-303)CCG>CTG	p.P101L	NUP210L_uc010peh.1_Missense_Mutation_p.P101L	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	101						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			GAGGCGTATCGGTTGCGTAGA	0.408													10	47					0	0	0.006214	0	0	
PYGO2	90780	broad.mit.edu	37	1	154931946	154931946	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:154931946G>T	uc001fft.2	-	3	736	c.530C>A	c.(529-531)CCT>CAT	p.P177H		NM_138300	NP_612157	Q9BRQ0	PYGO2_HUMAN	pygopus homolog 2	177	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding|zinc ion binding			skin(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CCCACTGGGAGGACTAAAGTT	0.607													12	34					0.00136819	0.0014122	0.013537	1	0	
SHC1	6464	broad.mit.edu	37	1	154942610	154942610	+	Silent	SNP	G	A	A	rs150853919	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:154942610G>A	uc001ffv.2	-	1	614	c.393C>T	c.(391-393)GGC>GGT	p.G131G	SHC1_uc001ffz.1_5'Flank|SHC1_uc001ffw.2_Silent_p.G131G|SHC1_uc001ffx.2_Silent_p.G21G|SHC1_uc001ffy.2_Silent_p.G21G	NM_183001	NP_892113	P29353	SHC1_HUMAN	SHC-transforming protein 1 isoform 1	131					activation of MAPK activity|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|positive regulation of DNA replication|Ras protein signal transduction|regulation of epidermal growth factor receptor activity|regulation of growth	cytosol|mitochondrial matrix|Shc-EGFR complex	epidermal growth factor receptor binding|insulin receptor binding|insulin-like growth factor receptor binding|phospholipid binding|protein binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(1)|skin(1)	2	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TCCACTCCTCGCCCCCAAGCT	0.652													9	59					0	0	0.008291	0	0	
CLK2	1196	broad.mit.edu	37	1	155233104	155233104	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:155233104T>C	uc001fjy.2	-	13	1695	c.1405A>G	c.(1405-1407)ACC>GCC	p.T469A	RAG1AP1_uc010pey.1_Intron|SCAMP3_uc001fjr.2_5'Flank|SCAMP3_uc001fjs.2_5'Flank|SCAMP3_uc001fju.2_5'Flank|SCAMP3_uc001fjv.2_5'Flank|SCAMP3_uc001fjt.2_5'Flank|CLK2_uc001fjw.2_Missense_Mutation_p.T468A|CLK2_uc001fjx.2_Missense_Mutation_p.T241A|CLK2_uc009wqm.2_Missense_Mutation_p.T469A	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	469	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			TCACCCAAGGTCAGCCGCTTA	0.567								Other_conserved_DNA_damage_response_genes					5	41					0	0	0.000602	0	0	
ARHGEF2	9181	broad.mit.edu	37	1	155920171	155920171	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:155920171G>A	uc001fmt.2	-	21	2924	c.2806C>T	c.(2806-2808)CGG>TGG	p.R936W	ARHGEF2_uc001fmq.2_Missense_Mutation_p.R174W|ARHGEF2_uc001fmr.2_Missense_Mutation_p.R908W|ARHGEF2_uc001fms.2_Missense_Mutation_p.R935W|ARHGEF2_uc001fmu.2_Missense_Mutation_p.R980W	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	936					actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					TCTTGCAGCCGCTCTTCGGGG	0.627													13	57					0	0	0.013537	0	0	
SLC25A44	9673	broad.mit.edu	37	1	156169979	156169979	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:156169979T>C	uc001fnp.2	+	2	663	c.341T>C	c.(340-342)GTG>GCG	p.V114A	SLC25A44_uc010phc.1_Intron|SLC25A44_uc009wrr.2_Missense_Mutation_p.V114A|SLC25A44_uc010phd.1_Intron|SLC25A44_uc010phe.1_Intron	NM_014655	NP_055470	Q96H78	S2544_HUMAN	solute carrier family 25, member 44	114	Solcar 2.|Helical; Name=3; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			ovary(1)	1	Hepatocellular(266;0.158)					AAATCACTGGTGGCTGGTGGC	0.532													11	45					0	0	0.008291	0	0	
BCAN	63827	broad.mit.edu	37	1	156622678	156622678	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:156622678G>A	uc001fpp.2	+	8	2272	c.1936G>A	c.(1936-1938)GCA>ACA	p.A646T	BCAN_uc001fpo.2_Missense_Mutation_p.A646T	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	646	EGF-like.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CGTGGTCCCCGCATCAGGTAA	0.592													9	58					0	0	0.008291	0	0	
HDGF	3068	broad.mit.edu	37	1	156714905	156714905	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:156714905G>A	uc001fpy.3	-	3	520	c.198C>T	c.(196-198)TAC>TAT	p.Y66Y	HDGF_uc009wsd.2_Silent_p.Y34Y|HDGF_uc001fpz.3_Silent_p.Y59Y|HDGF_uc009wse.2_Silent_p.Y82Y|HDGF_uc010phr.1_Silent_p.Y82Y|HDGF_uc009wsf.2_Silent_p.Y34Y|HDGF_uc009wsg.2_Silent_p.Y66Y	NM_004494	NP_004485	P51858	HDGF_HUMAN	hepatoma-derived growth factor isoform a	66	PWWP.				cell proliferation|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	DNA binding|growth factor activity|heparin binding|nucleotide binding	p.Y66D(1)		lung(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)	Breast(1374;0.198)		Colorectal(1306;0.018)		TGGATTCCTCGTAAGGGAAGA	0.582													9	40					0	0	0.004482	0	0	
PEAR1	375033	broad.mit.edu	37	1	156883234	156883234	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:156883234G>A	uc001fqj.1	+	20	2679	c.2563G>A	c.(2563-2565)GCC>ACC	p.A855T	PEAR1_uc001fqk.1_Missense_Mutation_p.A480T	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	855	Pro-rich.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GCCAGGTGGGGCCCAAGGGCA	0.667													6	34					0	0	0.001168	0	0	
OR10Z1	128368	broad.mit.edu	37	1	158577123	158577123	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:158577123A>G	uc010pio.1	+	1	895	c.895A>G	c.(895-897)ACA>GCA	p.T299A		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					GGCTATACAGACAGCTCTGAG	0.453													24	155					0	0	0.002780	0	0	
SPTA1	6708	broad.mit.edu	37	1	158651438	158651438	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:158651438C>T	uc001fst.1	-	4	609	c.410G>A	c.(409-411)CGC>CAC	p.R137H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	137	Spectrin 2.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CCACAGGTGGCGTAGCTCCTC	0.552													11	89					0	0	0.010729	0	0	
ARHGAP30	257106	broad.mit.edu	37	1	161018315	161018315	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:161018315C>T	uc001fxl.2	-	12	2842	c.2496G>A	c.(2494-2496)GGG>GGA	p.G832G	USF1_uc001fxi.2_5'Flank|USF1_uc001fxj.2_5'Flank|ARHGAP30_uc001fxk.2_Intron|ARHGAP30_uc001fxm.2_Silent_p.G678G|ARHGAP30_uc009wtx.2_Silent_p.G505G	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	832	Glu-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			TGCTGACCTCCCCTGCTCCTC	0.547													23	94					0	0	0.014323	0	0	
ADAMTS4	9507	broad.mit.edu	37	1	161166501	161166501	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:161166501C>T	uc001fyt.3	-	2	1231	c.803G>A	c.(802-804)CGG>CAG	p.R268Q	ADAMTS4_uc001fyu.2_Missense_Mutation_p.R268Q|NDUFS2_uc001fyv.2_5'Flank	NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	268	Peptidase M12B.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GATCACTAGCCGAGTCACCAC	0.647													24	79					0	0	0.002780	0	0	
C1orf111	284680	broad.mit.edu	37	1	162344047	162344047	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:162344047G>T	uc001gbx.2	-	3	641	c.577C>A	c.(577-579)CCC>ACC	p.P193T		NM_182581	NP_872387	Q5T0L3	CA111_HUMAN	hypothetical protein LOC284680	193										ovary(1)	1	all_hematologic(112;0.15)		BRCA - Breast invasive adenocarcinoma(70;0.0938)			TCCAGGGTGGGGTACATGCGG	0.587													34	131					1.62565e-12	1.81791e-12	0.012213	1	0	
PBX1	5087	broad.mit.edu	37	1	164776856	164776856	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:164776856A>G	uc001gct.2	+	5	1037	c.779A>G	c.(778-780)TAC>TGC	p.Y260C	PBX1_uc010pku.1_Missense_Mutation_p.Y260C|PBX1_uc010pkv.1_Missense_Mutation_p.Y177C|PBX1_uc001gcs.2_Missense_Mutation_p.Y260C|PBX1_uc010pkw.1_Missense_Mutation_p.Y150C	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	260	Homeobox; TALE-type.				negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						AGCAACCCTTACCCCAGTGAG	0.473			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								17	95					0	0	0.006122	0	0	
BAT2L2	23215	broad.mit.edu	37	1	171494056	171494056	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:171494056A>G	uc010pmg.1	+	10	1412	c.1146A>G	c.(1144-1146)CAA>CAG	p.Q382Q	BAT2L2_uc001ghr.1_Silent_p.Q384Q	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	382							protein C-terminus binding				0						TACCTGCCCAACCATCAGTAG	0.388													3	14					0	0	0.004672	0	0	
RASAL2	9462	broad.mit.edu	37	1	178063757	178063757	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:178063757G>A	uc001glq.2	+	1	894	c.130G>A	c.(130-132)GTC>ATC	p.V44I	RASAL2_uc009wxb.2_Missense_Mutation_p.V44I|LOC100302401_uc001gln.1_5'Flank|LOC100302401_uc001glo.1_5'Flank|RASAL2_uc009wxa.2_RNA	NM_170692	NP_733793	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 2	Error:Variant_position_missing_in_Q9UJF2_after_alignment					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						CAGTGGAGCCGTCGCCGGTGG	0.672													4	14					0	0	0.009096	0	0	
ZNF648	127665	broad.mit.edu	37	1	182025680	182025680	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:182025680G>A	uc001goz.2	-	2	1674	c.1466C>T	c.(1465-1467)TCG>TTG	p.S489L		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	489	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTTCAGGGTCGAAGAGCGGGC	0.667													3	21					0	0	0.009096	0	0	
C1orf14	81626	broad.mit.edu	37	1	182869270	182869270	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:182869270C>T	uc001gpu.2	-	10	2095	c.1810G>A	c.(1810-1812)GTA>ATA	p.V604I	C1orf14_uc001gpv.2_Missense_Mutation_p.V485I|C1orf14_uc010pnz.1_Missense_Mutation_p.V462I|C1orf14_uc001gpw.2_Missense_Mutation_p.V324I	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	676											0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		TCTTCTGCTACGATAAAAAAC	0.343													7	25					0	0	0.003080	0	0	
TPR	7175	broad.mit.edu	37	1	186328998	186328998	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:186328998C>T	uc001grv.2	-	12	1619	c.1322G>A	c.(1321-1323)CGT>CAT	p.R441H	TPR_uc010pop.1_Missense_Mutation_p.R517H	NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	441	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		ATATTCCTCACGCTGGCGTTT	0.383			T	NTRK1	papillary thyroid								14	53					0	0	0.001855	0	0	
FAM5C	339479	broad.mit.edu	37	1	190068096	190068096	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:190068096T>C	uc001gse.1	-	8	1585	c.1353A>G	c.(1351-1353)ACA>ACG	p.T451T	FAM5C_uc010pot.1_Silent_p.T349T	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	451						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CTGGTGCGCATGTCAGGCAGG	0.632													10	66					0	0	0.006214	0	0	
CFHR3	10878	broad.mit.edu	37	1	196749098	196749098	+	Missense_Mutation	SNP	G	A	A	rs144960443		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:196749098G>A	uc001gtl.2	+	3	512	c.425G>A	c.(424-426)CGT>CAT	p.R142H	CFHR3_uc001gtk.2_Missense_Mutation_p.R142H|CFHR3_uc010poy.1_Missense_Mutation_p.R142H|CFHR1_uc001gtm.2_Intron	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	142	Sushi 2.					extracellular space					0						AGATGCATCCGTGTCAGTAAG	0.483													5	71					0	0	0.001168	0	0	
ASPM	259266	broad.mit.edu	37	1	197093329	197093329	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:197093329T>C	uc001gtu.2	-	13	3558	c.3301A>G	c.(3301-3303)AGG>GGG	p.R1101G	ASPM_uc001gtv.2_Missense_Mutation_p.R1101G|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1101					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						CCACTATCCCTTTTGCCTTTT	0.303													11	56					0	0	0.010729	0	0	
ASPM	259266	broad.mit.edu	37	1	197108943	197108943	+	Silent	SNP	G	A	A	rs151087446		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:197108943G>A	uc001gtu.2	-	4	2237	c.1980C>T	c.(1978-1980)ATC>ATT	p.I660I	ASPM_uc001gtv.2_Silent_p.I660I|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	660					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GTGCCACAGCGATAATGGGTT	0.294													18	71					0	0	0.008871	0	0	
KIF21B	23046	broad.mit.edu	37	1	200944791	200944791	+	Missense_Mutation	SNP	C	T	T	rs146030020	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:200944791C>T	uc001gvs.1	-	33	4767	c.4450G>A	c.(4450-4452)GAG>AAG	p.E1484K	KIF21B_uc001gvr.1_Missense_Mutation_p.E1471K|KIF21B_uc009wzl.1_Missense_Mutation_p.E1484K|KIF21B_uc010ppn.1_Missense_Mutation_p.E1471K	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	1484	WD 4.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						TCGCCCAGCTCGAACATCTGT	0.632													8	32					0	0	0.003080	0	0	
IPO9	55705	broad.mit.edu	37	1	201840319	201840319	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:201840319C>T	uc001gwz.2	+	19	2490	c.2440C>T	c.(2440-2442)CAC>TAC	p.H814Y		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	814					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2						TCATCTGGTGCACACTCAGCT	0.493													19	99					0	0	0.010504	0	0	
SYT2	127833	broad.mit.edu	37	1	202568475	202568475	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:202568475C>T	uc001gye.2	-	8	1117	c.924G>A	c.(922-924)CCG>CCA	p.P308P	SYT2_uc010pqb.1_Silent_p.P308P|SYT2_uc009xaf.2_Silent_p.P138P	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	308	Phospholipid binding (By similarity).|C2 2.|Cytoplasmic (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	TCTTCACGTACGGGTCTGCGG	0.552													8	78					0	0	0.006214	0	0	
PIK3C2B	5287	broad.mit.edu	37	1	204403573	204403573	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:204403573A>G	uc001haw.2	-	25	4159	c.3680T>C	c.(3679-3681)ATC>ACC	p.I1227T	PIK3C2B_uc010pqv.1_Missense_Mutation_p.I1199T	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	1227	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			TTACCGCTTGATGTTGCCAAA	0.512													4	16					0	0	0.009096	0	0	
YOD1	55432	broad.mit.edu	37	1	207222856	207222856	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:207222856T>C	uc001hfe.1	-	2	603	c.556A>G	c.(556-558)ATA>GTA	p.I186V	PFKFB2_uc010psc.1_5'UTR|YOD1_uc001hff.1_Missense_Mutation_p.I142V	NM_018566	NP_061036	Q5VVQ6	OTU1_HUMAN	YOD1 OTU deubiquinating enzyme 1 homolog	186	OTU.				cellular amino acid metabolic process|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|protein K48-linked deubiquitination|protein K63-linked deubiquitination	intracellular	protein binding|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1	Prostate(682;0.19)					ATTTGTGCTATGAGGCGTCTC	0.468													19	81					0	0	0.008871	0	0	
CR2	1380	broad.mit.edu	37	1	207646356	207646356	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:207646356C>T	uc001hfw.2	+	10	1904	c.1810C>T	c.(1810-1812)CAT>TAT	p.H604Y	CR2_uc001hfv.2_Missense_Mutation_p.H604Y|CR2_uc009xch.2_Missense_Mutation_p.H604Y|CR2_uc009xci.1_Missense_Mutation_p.H89Y	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	604	Sushi 10.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						CCAGTGCTCACATGTCCATAT	0.448													9	37					0	0	0.006214	0	0	
CR1	1378	broad.mit.edu	37	1	207748941	207748941	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:207748941C>T	uc001hfy.2	+	20	3243	c.3103C>T	c.(3103-3105)CAC>TAC	p.H1035Y	CR1_uc009xcl.1_Missense_Mutation_p.H585Y|CR1_uc001hfx.2_Missense_Mutation_p.H1485Y	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1035	Extracellular (Potential).|Sushi 16.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TGCCTTTAGGCACCGACTCAT	0.423													31	142					0	0	0.010818	0	0	
CD46	4179	broad.mit.edu	37	1	207940426	207940426	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:207940426T>C	uc001hgc.2	+	6	898	c.742T>C	c.(742-744)TAC>CAC	p.Y248H	CD46_uc001hgd.2_Missense_Mutation_p.Y248H|CD46_uc001hge.2_Missense_Mutation_p.Y248H|CD46_uc001hgf.2_Missense_Mutation_p.Y248H|CD46_uc001hgg.2_Missense_Mutation_p.Y248H|CD46_uc001hgh.2_Missense_Mutation_p.Y248H|CD46_uc001hgi.2_Missense_Mutation_p.Y248H|CD46_uc001hgj.2_Missense_Mutation_p.Y248H|CD46_uc001hgk.2_Missense_Mutation_p.Y248H|CD46_uc001hgl.2_Missense_Mutation_p.Y248H|CD46_uc001hgm.2_Missense_Mutation_p.Y248H|CD46_uc001hgn.2_Missense_Mutation_p.Y248H|CD46_uc001hgo.2_Missense_Mutation_p.Y248H|CD46_uc001hgp.2_Missense_Mutation_p.Y248H	NM_002389	NP_002380	P15529	MCP_HUMAN	CD46 antigen, complement regulatory protein	248	Extracellular (Potential).|Sushi 4.				complement activation, classical pathway|innate immune response|interspecies interaction between organisms|single fertilization	inner acrosomal membrane|integral to plasma membrane	protein binding|receptor activity			large_intestine(2)|lung(1)|central_nervous_system(1)	4						AAAATTTTACTACAAAGCAAC	0.388													5	55					0	0	0.000602	0	0	
PLXNA2	5362	broad.mit.edu	37	1	208219401	208219401	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:208219401T>C	uc001hgz.2	-	18	4075	c.3317A>G	c.(3316-3318)TAC>TGC	p.Y1106C		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1106	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GCCAGGGCGGTAGTCCGTGGT	0.507													10	43					0	0	0.006214	0	0	
RPS6KC1	26750	broad.mit.edu	37	1	213403856	213403856	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:213403856A>G	uc010ptr.1	+	9	1220	c.1061A>G	c.(1060-1062)GAC>GGC	p.D354G	RPS6KC1_uc001hkd.2_Missense_Mutation_p.D342G|RPS6KC1_uc010pts.1_Missense_Mutation_p.D142G|RPS6KC1_uc010ptt.1_Missense_Mutation_p.D142G|RPS6KC1_uc010ptu.1_Missense_Mutation_p.D173G|RPS6KC1_uc010ptv.1_Intron|RPS6KC1_uc001hke.2_Missense_Mutation_p.D173G	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	354	Protein kinase 1.				cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		CTTGTAATGGACACAAGGACA	0.199													7	43					0	0	0.004482	0	0	
USH2A	7399	broad.mit.edu	37	1	216419954	216419954	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:216419954C>A	uc001hku.1	-	13	3169	c.2782G>T	c.(2782-2784)GGA>TGA	p.G928*	USH2A_uc001hkv.2_Nonsense_Mutation_p.G928*	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	928	Laminin EGF-like 8.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CACCTTCTTCCTTGACGATTA	0.438										HNSCC(13;0.011)			6	103					3.59834e-05	3.81827e-05	0.001168	1	0	
SPATA17	128153	broad.mit.edu	37	1	217955552	217955552	+	Missense_Mutation	SNP	C	T	T	rs145142638	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:217955552C>T	uc001hlh.1	+	8	786	c.760C>T	c.(760-762)CGC>TGC	p.R254C	SPATA17_uc009xdr.1_RNA|SPATA17_uc001hli.2_Missense_Mutation_p.R254C	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	254						cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		ATTAGAACAACGCTACAGGCC	0.458													7	37					0	0	0.001984	0	0	
PARP1	142	broad.mit.edu	37	1	226576414	226576414	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:226576414C>T	uc001hqd.3	-	5	831	c.660G>A	c.(658-660)GCG>GCA	p.A220A		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	220					cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		ATTTCTTCTTCGCCACTTCAT	0.433								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					21	108					0	0	0.002780	0	0	
WNT3A	89780	broad.mit.edu	37	1	228210473	228210473	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:228210473C>T	uc001hrq.1	+	2	255	c.177C>T	c.(175-177)TAC>TAT	p.Y59Y	WNT3A_uc001hrp.1_Silent_p.Y59Y	NM_033131	NP_149122	P56704	WNT3A_HUMAN	wingless-type MMTV integration site family,	59					axis specification|cell proliferation in forebrain|cell-cell signaling|cellular response to retinoic acid|convergent extension|dermatome development|dorsal/ventral neural tube patterning|embryonic pattern specification|extracellular matrix organization|hemopoietic stem cell proliferation|hippocampus development|inner ear morphogenesis|mammary gland development|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of neuron projection development|notochord development|palate development|paraxial mesodermal cell fate commitment|positive regulation of catenin import into nucleus|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of receptor internalization|positive regulation of transcription from RNA polymerase II promoter|signalosome assembly|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuroblast division|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled-2 binding|receptor agonist activity|signal transducer activity|transcription coactivator activity	p.Y59Y(1)		ovary(1)	1		Prostate(94;0.0405)				GCAGGAACTACGTGGAGATCA	0.652													12	27					0	0	0.013537	0	0	
OBSCN	84033	broad.mit.edu	37	1	228495098	228495098	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:228495098C>T	uc009xez.1	+	46	12376	c.12332C>T	c.(12331-12333)GCG>GTG	p.A4111V	OBSCN_uc001hsn.2_Missense_Mutation_p.A4111V	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4111	Ig-like 42.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GAGCTGCATGCGGGCCCCAAG	0.652													8	20					0	0	0.003080	0	0	
HIST3H2BB	128312	broad.mit.edu	37	1	228646120	228646120	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:228646120C>T	uc001hsz.2	+	1	313	c.290C>T	c.(289-291)ACG>ATG	p.T97M	HIST3H2A_uc001hsy.2_5'Flank	NM_175055	NP_778225	Q8N257	H2B3B_HUMAN	histone cluster 3, H2bb	97					nucleosome assembly	nucleosome|nucleus	DNA binding			skin(1)	1		Prostate(94;0.183)				GAAGTGCAGACGGCCGTTCGC	0.637													14	76					0	0	0.002450	0	0	
ACTA1	58	broad.mit.edu	37	1	229567918	229567918	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:229567918C>T	uc001htm.2	-	5	736	c.631G>A	c.(631-633)GTG>ATG	p.V211M		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	211					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	ATGTCGCGCACGATCTCGCGC	0.483													7	19					0	0	0.001984	0	0	
RYR2	6262	broad.mit.edu	37	1	237659953	237659953	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:237659953G>T	uc001hyl.1	+	20	2224	c.2104G>T	c.(2104-2106)GGA>TGA	p.G702*		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	702	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTCCACTGAAGGATATTCTCC	0.507													10	64					1.58986e-06	1.71278e-06	0.008291	1	0	
RYR2	6262	broad.mit.edu	37	1	237806708	237806708	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:237806708G>A	uc001hyl.1	+	48	7423	c.7303G>A	c.(7303-7305)GTT>ATT	p.V2435I		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2435	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TTTGGTGGGCGTTATCAGCAT	0.433													10	84					0	0	0.008291	0	0	
RYR2	6262	broad.mit.edu	37	1	237947057	237947057	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:237947057A>T	uc001hyl.1	+	90	12165	c.12045A>T	c.(12043-12045)AAA>AAT	p.K4015N	RYR2_uc010pya.1_Missense_Mutation_p.K430N	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4015					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TGATTCTCAAATTTTTTGACA	0.403													5	21					0	0	0.000602	0	0	
PLD5	200150	broad.mit.edu	37	1	242277235	242277235	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:242277235C>T	uc001hzn.1	-	7	1154	c.1027G>A	c.(1027-1029)GCT>ACT	p.A343T	PLD5_uc001hzl.3_Missense_Mutation_p.A281T|PLD5_uc001hzm.3_Missense_Mutation_p.A133T|PLD5_uc001hzo.1_Missense_Mutation_p.A251T			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	343						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			TCCATGACAGCGATGTACACA	0.453													12	47					0	0	0.013537	0	0	
SCCPDH	51097	broad.mit.edu	37	1	246903516	246903516	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:246903516G>T	uc001ibr.2	+	4	774	c.427G>T	c.(427-429)GAC>TAC	p.D143Y		NM_016002	NP_057086	Q8NBX0	SCPDH_HUMAN	saccharopine dehydrogenase (putative)	143						midbody	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity			ovary(1)	1	all_cancers(71;6.8e-05)|all_epithelial(71;7.93e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0545)|Lung NSC(105;0.0618)	all_cancers(173;0.0343)	OV - Ovarian serous cystadenocarcinoma(106;0.00323)	GBM - Glioblastoma multiforme(49;0.0896)		GAAAGCTGCAGACAAAGGGGT	0.348													9	59					0.000442599	0.000461331	0.006214	1	0	
OR2B11	127623	broad.mit.edu	37	1	247614943	247614943	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:247614943C>T	uc010pyx.1	-	1	342	c.342G>A	c.(340-342)ACG>ACA	p.T114T		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	114	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CGATGCACTCCGTGCATCCCA	0.597													14	60					0	0	0.002450	0	0	
OR2G3	81469	broad.mit.edu	37	1	247769083	247769083	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:247769083C>A	uc010pyz.1	+	1	196	c.196C>A	c.(196-198)CTC>ATC	p.L66I		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TCTCAGCAACCTCTCTTTACT	0.448													25	180					7.38237e-10	8.18631e-10	0.006320	1	0	
OR11L1	391189	broad.mit.edu	37	1	248004808	248004808	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:248004808G>A	uc001idn.1	-	1	391	c.391C>T	c.(391-393)CGC>TGC	p.R131C		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			AAGGGGTAGCGGAGTGGGCTG	0.587													8	34					0	0	0.003080	0	0	
OR2L8	391190	broad.mit.edu	37	1	248112563	248112563	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:248112563T>C	uc001idt.1	+	1	404	c.404T>C	c.(403-405)ATG>ACG	p.M135T	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			CTCATCCGCATGAGCAAAAGA	0.433													23	153					0	0	0.012319	0	0	
OR2T12	127064	broad.mit.edu	37	1	248458349	248458349	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:248458349C>T	uc010pzj.1	-	1	532	c.532G>A	c.(532-534)GAG>AAG	p.E178K		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	178	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			ACGGGGGCCTCGCAGAAGAAG	0.567													17	56					0	0	0.006122	0	0	
OR2M7	391196	broad.mit.edu	37	1	248487386	248487386	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:248487386G>A	uc010pzk.1	-	1	485	c.485C>T	c.(484-486)GCG>GTG	p.A162V		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	162	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGAAAATGTCGCTACAGCATC	0.453													53	205					0	0	0.014410	0	0	
ZNF692	55657	broad.mit.edu	37	1	249151606	249151606	+	Missense_Mutation	SNP	C	T	T	rs143513211		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:249151606C>T	uc001ifc.1	-	4	469	c.302G>A	c.(301-303)CGG>CAG	p.R101Q	ZNF692_uc001iez.1_5'Flank|ZNF692_uc001ifa.1_5'UTR|ZNF692_uc001ifb.1_5'UTR|ZNF692_uc001ifd.1_Missense_Mutation_p.R101Q|ZNF692_uc001ife.1_RNA|ZNF692_uc001iff.1_Missense_Mutation_p.R101Q|ZNF692_uc010pzr.1_Missense_Mutation_p.R106Q	NM_017865	NP_060335	Q9BU19	ZN692_HUMAN	zinc finger protein 692 isoform 2	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			GCCAGGCCCCCGAAGCCCGGG	0.632													18	61					0	0	0.004990	0	0	
ZMYND11	10771	broad.mit.edu	37	10	255984	255984	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:255984A>G	uc010pzt.1	+	3	700	c.272A>G	c.(271-273)GAG>GGG	p.E91G	ZMYND11_uc001ifk.2_Missense_Mutation_p.E91G|ZMYND11_uc010pzu.1_Missense_Mutation_p.E91G|ZMYND11_uc010pzv.1_Missense_Mutation_p.E91G|ZMYND11_uc010pzw.1_Missense_Mutation_p.E91G|ZMYND11_uc001ifm.2_Missense_Mutation_p.E91G|ZMYND11_uc010pzx.1_Missense_Mutation_p.E91G|ZMYND11_uc001ifn.2_Missense_Mutation_p.E91G|ZMYND11_uc009xhg.2_Missense_Mutation_p.E74G|ZMYND11_uc009xhh.2_Missense_Mutation_p.E45G|ZMYND11_uc010pzy.1_Missense_Mutation_p.E45G	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	51					cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CCAGGAGATGAGATTGTAAGT	0.323													11	61					0	0	0.013537	0	0	
DIP2C	22982	broad.mit.edu	37	10	394598	394598	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:394598C>T	uc001ifp.2	-	26	3304	c.3214G>A	c.(3214-3216)GTC>ATC	p.V1072I	DIP2C_uc009xhi.1_Missense_Mutation_p.V458I	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	1072						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		ATCATCTTGACGGTAGGCAAC	0.572													23	89					0	0	0.002780	0	0	
C10orf18	54906	broad.mit.edu	37	10	5777426	5777426	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:5777426C>A	uc001iij.2	+	12	1989	c.1364C>A	c.(1363-1365)CCT>CAT	p.P455H	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	455										ovary(1)|central_nervous_system(1)	2						GCTAAGCCACCTGTGAAGAAA	0.408													18	88					1.99824e-07	2.17485e-07	0.004990	1	0	
CDC123	8872	broad.mit.edu	37	10	12288245	12288245	+	Missense_Mutation	SNP	G	A	A	rs142243159		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:12288245G>A	uc001ill.2	+	11	1099	c.815G>A	c.(814-816)GGC>GAC	p.G272D	CDC123_uc001ilm.2_Missense_Mutation_p.G284D	NM_006023	NP_006014	O75794	CD123_HUMAN	cell division cycle 123	272					cell cycle arrest|cell division|positive regulation of cell proliferation|regulation of mitotic cell cycle	cytoplasm				central_nervous_system(1)	1						AACTTAAACGGCGATTTTAGT	0.418													14	101					0	0	0.001855	0	0	
CUBN	8029	broad.mit.edu	37	10	17061870	17061870	+	Missense_Mutation	SNP	C	T	T	rs139600855		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:17061870C>T	uc001ioo.2	-	28	4182	c.4130G>A	c.(4129-4131)CGC>CAC	p.R1377H		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1377	CUB 8.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTTCTCACGGCGGCCAACCCC	0.502													9	40					0	0	0.004482	0	0	
ARMC3	219681	broad.mit.edu	37	10	23235188	23235188	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:23235188A>C	uc001irm.3	+	3	247	c.164A>C	c.(163-165)AAA>ACA	p.K55T	ARMC3_uc010qcv.1_Missense_Mutation_p.K55T|ARMC3_uc010qcw.1_Intron	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	55							binding				0						TTTGCTTTAAAAGGTTTGGAT	0.308													6	30					0	0	0.001168	0	0	
ANKRD26	22852	broad.mit.edu	37	10	27311608	27311608	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:27311608T>C	uc001ith.2	-	29	4263	c.4091A>G	c.(4090-4092)AAC>AGC	p.N1364S	ANKRD26_uc001itg.2_Missense_Mutation_p.N1051S|ANKRD26_uc009xku.1_Missense_Mutation_p.N1365S	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1364	Potential.					centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						TTTTAAGAGGTTCTTAAATCT	0.259													7	39					0	0	0.001984	0	0	
SVIL	6840	broad.mit.edu	37	10	29821496	29821496	+	Silent	SNP	C	T	T	rs144823074		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:29821496C>T	uc001iut.1	-	8	2553	c.1800G>A	c.(1798-1800)GCG>GCA	p.A600A	SVIL_uc001iuu.1_Intron|SVIL_uc009xld.1_Silent_p.A600A	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	600					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				ATGCCAGGAACGCACTTCGGA	0.582													5	34					0	0	0.001168	0	0	
C10orf68	79741	broad.mit.edu	37	10	33018260	33018260	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:33018260C>T	uc001iwn.3	+	10	1174	c.701C>T	c.(700-702)ACG>ATG	p.T234M	C10orf68_uc001iwl.1_Missense_Mutation_p.T242M|C10orf68_uc001iwm.1_Missense_Mutation_p.T210M|C10orf68_uc010qei.1_Missense_Mutation_p.T146M|C10orf68_uc001iwo.3_RNA	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	234										skin(2)|ovary(1)	3						TTCTATTTAGCGTTTCCTTTA	0.313													11	46					0	0	0.013537	0	0	
CUL2	8453	broad.mit.edu	37	10	35299267	35299267	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:35299267G>A	uc001ixv.2	-	21	2420	c.2210C>T	c.(2209-2211)TCG>TTG	p.S737L	CUL2_uc009xma.2_Missense_Mutation_p.S606L|CUL2_uc010qer.1_Missense_Mutation_p.S756L|CUL2_uc001ixw.2_Missense_Mutation_p.S737L	NM_003591	NP_003582	Q13617	CUL2_HUMAN	cullin 2	737					cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding			ovary(3)	3						TTCATCTGCCGACGCCTGGCT	0.463													8	29					0	0	0.003080	0	0	
GJD4	219770	broad.mit.edu	37	10	35896743	35896743	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:35896743C>T	uc001iyy.1	+	2	460	c.302C>T	c.(301-303)GCC>GTC	p.A101V		NM_153368	NP_699199	Q96KN9	CXD4_HUMAN	connexin40.1	101	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane				large_intestine(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CACCGAGGAGCCACGCTCGCC	0.746													7	41					0	0	0.003080	0	0	
HNRNPA3P1	10151	broad.mit.edu	37	10	44285786	44285786	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:44285786C>T	uc010qfe.1	-	1	80	c.50G>A	c.(49-51)CGC>CAC	p.R17H		NR_002726				SubName: Full=cDNA FLJ52659, highly similar to Heterogeneous nuclear ribonucleoprotein A3; SubName: Full=cDNA, FLJ79333, highly similar to Heterogeneous nuclear ribonucleoprotein A3; SubName: Full=Heterogeneous nuclear ribonucleoprotein A3, isoform CRA_a;												0						GTGGCGACGGCGACTGCCGGA	0.547													5	16					0	0	0.000602	0	0	
Unknown	0	broad.mit.edu	37	10	51818917	51818917	+	RNA	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:51818917T>C	uc001jiz.1	-	3		c.1514A>G								Homo sapiens cDNA FLJ31813 fis, clone NT2RI2009517.																		atcatcaccatcatcatcatc	0.468													4	16					0	0	0.009096	0	0	
PCDH15	65217	broad.mit.edu	37	10	55582606	55582606	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:55582606G>A	uc001jju.1	-	33	5275	c.4880C>T	c.(4879-4881)ACA>ATA	p.T1627I	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.T1624I|PCDH15_uc010qhw.1_Missense_Mutation_p.T1587I|PCDH15_uc010qhx.1_Missense_Mutation_p.T1558I|PCDH15_uc010qhy.1_Missense_Mutation_p.T1634I|PCDH15_uc010qhz.1_Missense_Mutation_p.T1629I|PCDH15_uc010qia.1_Missense_Mutation_p.T1607I|PCDH15_uc010qib.1_Missense_Mutation_p.T1604I	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1627	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CTCTTCAGTTGTAAGCAATGG	0.413										HNSCC(58;0.16)			21	102					0	0	0.012319	0	0	
ANK3	288	broad.mit.edu	37	10	61833777	61833777	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:61833777T>C	uc001jky.2	-	37	7054	c.6862A>G	c.(6862-6864)AAA>GAA	p.K2288E	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2288					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GCCAGTTCTTTGGAAGGATCC	0.502													19	124					0	0	0.006122	0	0	
ZNF365	22891	broad.mit.edu	37	10	64403708	64403708	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:64403708C>T	uc001jmd.1	+	2	357	c.23C>T	c.(22-24)ACC>ATC	p.T8I	ZNF365_uc001jmc.2_Intron|ZNF365_uc001jme.1_RNA|ZNF365_uc001jmf.1_RNA|ZNF365_uc009xpg.1_RNA	NM_199452	NP_955524	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform D	8										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GGTCAGATAACCATCACTGTC	0.458													9	57					0	0	0.006214	0	0	
EGR2	1959	broad.mit.edu	37	10	64574120	64574120	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:64574120A>G	uc010qim.1	-	3	432	c.278T>C	c.(277-279)ATG>ACG	p.M93T	EGR2_uc010qin.1_Missense_Mutation_p.M43T|EGR2_uc001jmi.2_Missense_Mutation_p.M93T|EGR2_uc010qio.1_Missense_Mutation_p.M106T|EGR2_uc009xph.2_Missense_Mutation_p.M93T	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	93					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GAACTTGCCCATGTAAGTGAA	0.507													11	53					0	0	0.008291	0	0	
DLG5	9231	broad.mit.edu	37	10	79614032	79614032	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:79614032G>A	uc001jzk.2	-	4	703	c.633C>T	c.(631-633)AAC>AAT	p.N211N	DLG5_uc001jzj.2_5'Flank|DLG5_uc009xru.1_RNA	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	211					cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			TCTTCAAGGCGTTGGTGTGCT	0.592													11	31					0	0	0.010729	0	0	
IFIT2	3433	broad.mit.edu	37	10	91066903	91066903	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:91066903A>C	uc009xts.2	+	2	1365	c.1190A>C	c.(1189-1191)GAG>GCG	p.E397A	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron	NM_001547	NP_001538	P09913	IFIT2_HUMAN	interferon-induced protein with	397	TPR 6.				negative regulation of protein binding|response to virus|type I interferon-mediated signaling pathway		protein binding			ovary(1)|skin(1)	2		Colorectal(252;0.0161)				CACTTTATAGAGGGTGTAAAA	0.403													14	71					0	0	0.003163	0	0	
RPP30	10556	broad.mit.edu	37	10	92656136	92656136	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:92656136G>A	uc009xtx.2	+	10	719	c.684G>A	c.(682-684)GCG>GCA	p.A228A	RPP30_uc001khd.2_Silent_p.A228A	NM_006413	NP_006404	P78346	RPP30_HUMAN	ribonuclease P/MRP 30kDa subunit isoform b	228					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity				0						GCCGAGCAGCGCTTCTCCATG	0.478													7	29					0	0	0.001984	0	0	
MYOF	26509	broad.mit.edu	37	10	95076536	95076536	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:95076536C>T	uc001kin.2	-	50	5756	c.5633G>A	c.(5632-5634)CGA>CAA	p.R1878Q	MYOF_uc001kio.2_Missense_Mutation_p.R1865Q|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1878	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						GGGTGGGATTCGAAATTCCGT	0.403													8	49					0	0	0.003080	0	0	
CNNM1	26507	broad.mit.edu	37	10	101147941	101147941	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:101147941G>A	uc001kpp.3	+	9	2846	c.2557G>A	c.(2557-2559)GAG>AAG	p.E853K	CNNM1_uc010qpi.1_Missense_Mutation_p.E874K|CNNM1_uc009xwf.2_Intron|CNNM1_uc009xwg.2_Missense_Mutation_p.E253K	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	853					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		AAGCCCCAGCGAGGTAGTGTA	0.607													7	42					0	0	0.001984	0	0	
CPN1	1369	broad.mit.edu	37	10	101824970	101824970	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:101824970G>A	uc001kql.2	-	4	994	c.734C>T	c.(733-735)ACG>ATG	p.T245M		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	245	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		GTCGTCAGGCGTGGGGGTGCT	0.607													22	80					0	0	0.012319	0	0	
C10orf2	56652	broad.mit.edu	37	10	102749148	102749148	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:102749148G>A	uc001ksf.2	+	1	1856	c.1181G>A	c.(1180-1182)CGC>CAC	p.R394H	MRPL43_uc001kry.1_5'Flank|MRPL43_uc010qpu.1_5'Flank|MRPL43_uc001krz.1_5'Flank|MRPL43_uc001ksa.1_5'Flank|MRPL43_uc001ksb.1_5'Flank|MRPL43_uc001ksd.1_5'Flank|MRPL43_uc001ksc.2_5'Flank|MRPL43_uc001kse.2_5'Flank|C10orf2_uc001ksg.2_Missense_Mutation_p.R394H|C10orf2_uc001ksi.2_Intron|C10orf2_uc010qpv.1_Intron|C10orf2_uc001ksh.2_Intron	NM_021830	NP_068602	Q96RR1	PEO1_HUMAN	twinkle isoform A	394	SF4 helicase.				cell death|mitochondrial DNA replication|protein hexamerization|protein homooligomerization|transcription from mitochondrial promoter	mitochondrial nucleoid	5'-3' DNA helicase activity|ATP binding|protease binding|single-stranded DNA binding			ovary(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CGCTGGAGCCGCTTTCCAGAC	0.542													7	58					0	0	0.004482	0	0	
MIR1307	100302174	broad.mit.edu	37	10	105154068	105154068	+	RNA	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:105154068G>A	hsa-mir-1307|MI0006444	-			c.91G>A			USMG5_uc001kww.1_5'UTR|USMG5_uc001kwx.1_Intron|PDCD11_uc001kwy.1_5'Flank																	0						CACGACCGACGCCACGCCGAG	0.498													15	59					0	0	0.003163	0	0	
PDCD11	22984	broad.mit.edu	37	10	105178275	105178275	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:105178275C>A	uc001kwy.1	+	15	2077	c.1990C>A	c.(1990-1992)CTC>ATC	p.L664I		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	664	S1 motif 7.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CCGTGCTTTCCTCCCCACATC	0.537													14	66					3.27435e-08	3.58587e-08	0.002450	1	0	
ABLIM1	3983	broad.mit.edu	37	10	116247743	116247743	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:116247743A>T	uc010qsg.1	-	8	1114	c.1015T>A	c.(1015-1017)TCT>ACT	p.S339T	ABLIM1_uc010qsh.1_Missense_Mutation_p.S279T|ABLIM1_uc010qsi.1_Missense_Mutation_p.S279T|ABLIM1_uc010qsk.1_Missense_Mutation_p.S263T|ABLIM1_uc009xyp.2_Missense_Mutation_p.S273T|ABLIM1_uc010qsf.1_Missense_Mutation_p.S23T|ABLIM1_uc009xyn.2_Missense_Mutation_p.S16T|ABLIM1_uc010qsj.1_Missense_Mutation_p.S16T|ABLIM1_uc009xyo.2_Missense_Mutation_p.S187T	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	339	LIM zinc-binding 4.				axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		GTCTTCGTAGATTGCTTACAG	0.483													29	126					0	0	0.008361	0	0	
BAG3	9531	broad.mit.edu	37	10	121429568	121429568	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:121429568C>T	uc001lem.2	+	2	692	c.386C>T	c.(385-387)GCG>GTG	p.A129V	BAG3_uc001lel.2_Missense_Mutation_p.A129V	NM_004281	NP_004272	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	129	WW 2.				anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		GCGGCAGCAGCGGCTCCTCAG	0.632													6	93					0	0	0.001984	0	0	
SEC23IP	11196	broad.mit.edu	37	10	121691686	121691686	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:121691686C>T	uc001leu.1	+	16	2686	c.2614C>T	c.(2614-2616)CAG>TAG	p.Q872*	SEC23IP_uc010qtc.1_Nonsense_Mutation_p.Q661*|SEC23IP_uc009xzk.1_RNA	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	872	DDHD.				Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		TGATTTGAAGCAGGGTTTTAT	0.408													9	65					0	0	0.008291	0	0	
TACC2	10579	broad.mit.edu	37	10	123842944	123842944	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:123842944G>A	uc001lfv.2	+	4	1289	c.929G>A	c.(928-930)TGC>TAC	p.C310Y	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.C310Y|TACC2_uc010qtv.1_Missense_Mutation_p.C310Y	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	310						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				CTCAGGGCCTGCCATCTCCCT	0.582													16	71					0	0	0.003163	0	0	
MTG1	92170	broad.mit.edu	37	10	135233048	135233048	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:135233048G>A	uc001lnd.2	+	10	921	c.817G>A	c.(817-819)GCT>ACT	p.A273T	MTG1_uc010qve.1_Missense_Mutation_p.A138T	NM_138384	NP_612393	Q9BT17	MTG1_HUMAN	GTP_binding protein precursor	273						mitochondrion	GTP binding|protein binding			skin(1)	1		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|all cancers(32;1.69e-06)|Epithelial(32;1.94e-06)		GAAGAGTGTGGCTGTGAAGCT	0.647													3	13					0	0	0.004672	0	0	
RNH1	6050	broad.mit.edu	37	11	502099	502099	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:502099C>T	uc001lpk.1	-	1	1472	c.64G>A	c.(64-66)GAG>AAG	p.E22K	RNH1_uc001lpl.1_Missense_Mutation_p.E22K|RNH1_uc001lpm.1_Missense_Mutation_p.E22K|RNH1_uc001lpn.1_Missense_Mutation_p.E22K|RNH1_uc001lpo.1_Missense_Mutation_p.E22K|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Missense_Mutation_p.E22K|RNH1_uc001lpt.1_5'UTR|RNH1_uc001lpq.1_Missense_Mutation_p.E22K|RNH1_uc001lpr.1_Missense_Mutation_p.E22K|RNH1_uc001lps.1_Missense_Mutation_p.E22K|RNH1_uc009ybx.1_Missense_Mutation_p.E22K	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	22	LRR 1.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGGAGGAGCTCGGCCCATCTA	0.667													4	21					0	0	0.001168	0	0	
PHRF1	57661	broad.mit.edu	37	11	598487	598487	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:598487C>T	uc001lqe.2	+	9	1140	c.1009C>T	c.(1009-1011)CGG>TGG	p.R337W	PHRF1_uc010qwc.1_Missense_Mutation_p.R337W|PHRF1_uc010qwd.1_Missense_Mutation_p.R336W|PHRF1_uc010qwe.1_Missense_Mutation_p.R333W|PHRF1_uc009ybz.1_Missense_Mutation_p.R128W	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	337	Arg-rich.						RNA polymerase binding|zinc ion binding				0						TCCCGCCCGACGGAAGAGGAA	0.657													6	19					0	0	0.001984	0	0	
LOC650368	650368	broad.mit.edu	37	11	3427845	3427845	+	RNA	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:3427845C>T	uc010qxs.1	+	9		c.838C>T			LOC650368_uc001lxx.2_RNA|LOC650368_uc001lxy.2_RNA	NR_024248				Homo sapiens cDNA FLJ41654 fis, clone FEBRA2025463, weakly  similar to Homo sapiens HMT-1 mRNA for beta-1,4 mannosyltransferase.												0						CTTCAAGTGGCAGGAGCAGAA	0.587													6	32					0	0	0.001168	0	0	
OR51G1	79324	broad.mit.edu	37	11	4945194	4945194	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:4945194C>T	uc010qyr.1	-	1	376	c.376G>A	c.(376-378)GTG>ATG	p.V126M		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		CAGACGGCCACGTAGCGGTCA	0.507													6	41					0	0	0.001168	0	0	
DENND5A	23258	broad.mit.edu	37	11	9161272	9161272	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:9161272C>T	uc001mhl.2	-	23	4065	c.3810G>A	c.(3808-3810)TTG>TTA	p.L1270L	DENND5A_uc001mhk.2_Silent_p.L613L|DENND5A_uc010rbw.1_3'UTR	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	1270	RUN 2.									liver(1)	1						TGAACTCCTGCAATGTCTGCA	0.532													3	19					0	0	0.004672	0	0	
LGR4	55366	broad.mit.edu	37	11	27390555	27390555	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:27390555G>A	uc001mrj.3	-	18	2200	c.1715C>T	c.(1714-1716)TCG>TTG	p.S572L	LGR4_uc001mrk.3_Missense_Mutation_p.S548L	NM_018490	NP_060960	Q9BXB1	LGR4_HUMAN	leucine-rich repeat-containing G protein-coupled	572	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1						CAATTTGGACGAAGGCAGTGA	0.378													15	55					0	0	0.004007	0	0	
HIPK3	10114	broad.mit.edu	37	11	33362656	33362656	+	Missense_Mutation	SNP	G	A	A	rs140757794	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:33362656G>A	uc001mul.1	+	7	2026	c.1756G>A	c.(1756-1758)GGA>AGA	p.G586R	HIPK3_uc001mum.1_Missense_Mutation_p.G586R|HIPK3_uc009yjv.1_Missense_Mutation_p.G586R	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	586					anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						TACTAAAATCGGAACATTAAG	0.318													10	32					0	0	0.008291	0	0	
C11orf41	25758	broad.mit.edu	37	11	33565180	33565180	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:33565180G>T	uc001mup.3	+	1	1304	c.1180G>T	c.(1180-1182)GCA>TCA	p.A394S	C11orf41_uc001mun.1_Missense_Mutation_p.A394S	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	394						integral to membrane				ovary(2)	2						GAAAAAGCCAGCAACCACAGA	0.428											OREG0020868	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	34					0.00116845	0.00120956	0.001168	1	0	
C11orf41	25758	broad.mit.edu	37	11	33565323	33565323	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:33565323A>G	uc001mup.3	+	1	1447	c.1323A>G	c.(1321-1323)TTA>TTG	p.L441L	C11orf41_uc001mun.1_Silent_p.L441L	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	441						integral to membrane				ovary(2)	2						AAACTCATTTAGCTCCAACAG	0.418											OREG0020868	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	85					0	0	0.009535	0	0	
PHF21A	51317	broad.mit.edu	37	11	46001356	46001356	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:46001356G>A	uc001ncc.3	-	6	939	c.315C>T	c.(313-315)CAC>CAT	p.H105H	PHF21A_uc001ncb.3_Silent_p.H105H|PHF21A_uc009ykx.2_Silent_p.H105H|PHF21A_uc001nce.2_Silent_p.H105H	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	105	Gln-rich.				blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						actgctgggcgtggtggtggt	0.259													10	52					0	0	0.006214	0	0	
AMBRA1	55626	broad.mit.edu	37	11	46455113	46455113	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:46455113G>A	uc010rgu.1	-	14	3247	c.2887C>T	c.(2887-2889)CGA>TGA	p.R963*	AMBRA1_uc010rgt.1_Nonsense_Mutation_p.R529*|AMBRA1_uc009ylc.1_Nonsense_Mutation_p.R934*|AMBRA1_uc001ncu.1_Nonsense_Mutation_p.R873*|AMBRA1_uc001ncv.2_Nonsense_Mutation_p.R966*|AMBRA1_uc001ncw.2_Nonsense_Mutation_p.R844*|AMBRA1_uc001ncx.2_Nonsense_Mutation_p.R903*	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	963					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle		p.R873*(1)		large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		AGGATCCTTCGTGAGGCCAAG	0.562													9	36					0	0	0.004482	0	0	
LRP4	4038	broad.mit.edu	37	11	46895077	46895077	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:46895077G>T	uc001ndn.3	-	29	4443	c.4297C>A	c.(4297-4299)CTG>ATG	p.L1433M	uc001ndl.2_RNA	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1433	Extracellular (Potential).|LDL-receptor class B 16.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		TCCACTGCCAGCCCGTCAGTG	0.587													7	59					0.000274275	0.000286447	0.004482	1	0	
PSMC3	5702	broad.mit.edu	37	11	47444173	47444173	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:47444173G>A	uc001nfh.2	-	8	1030	c.836C>T	c.(835-837)GCG>GTG	p.A279V	PSMC3_uc009ylr.1_Missense_Mutation_p.A237V	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3	279					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GATAGAGGGCGCTTTCTCCTT	0.587													18	75					0	0	0.004990	0	0	
RAPSN	5913	broad.mit.edu	37	11	47470379	47470379	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:47470379C>T	uc001nfi.1	-	1	352	c.138G>A	c.(136-138)CTG>CTA	p.L46L	RAPSN_uc001nfj.1_Silent_p.L46L|RAPSN_uc009yls.1_Silent_p.L46L	NM_005055	NP_005046	Q13702	RAPSN_HUMAN	43 kD receptor-associated protein of the synapse	46					synaptic transmission, cholinergic	cell junction|cytoskeleton|postsynaptic membrane	acetylcholine receptor binding|zinc ion binding			ovary(1)	1						CCAGGCAGCCCAGCACGCGGA	0.647													15	49					0	0	0.003163	0	0	
PTPRJ	5795	broad.mit.edu	37	11	48149351	48149351	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:48149351C>T	uc001ngp.3	+	7	1468	c.1113C>T	c.(1111-1113)GAC>GAT	p.D371D	PTPRJ_uc001ngo.3_Silent_p.D371D	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	371	Extracellular (Potential).|Fibronectin type-III 4.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						AGGTTTTTGACGTCACCGCTG	0.493													20	57					0	0	0.008871	0	0	
OR5D13	390142	broad.mit.edu	37	11	55541171	55541171	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:55541171C>T	uc010ril.1	+	1	258	c.258C>T	c.(256-258)AAC>AAT	p.N86N		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	86	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				TGTTGGAGAACTTGGTTGTGG	0.383													26	100					0	0	0.003954	0	0	
OR5R1	219479	broad.mit.edu	37	11	56185444	56185444	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:56185444G>A	uc010rji.1	-	1	265	c.265C>T	c.(265-267)CGC>TGC	p.R89C		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ATGGTGTTGCGTTCCACAACA	0.463													9	42					0	0	0.004482	0	0	
OR5M9	390162	broad.mit.edu	37	11	56230791	56230791	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:56230791G>T	uc010rjj.1	-	1	87	c.87C>A	c.(85-87)TTC>TTA	p.F29L		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					AAACCGCTAGGAACACCACAA	0.438													7	30					8.12818e-05	8.54791e-05	0.001984	1	0	
OR4D9	390199	broad.mit.edu	37	11	59282922	59282922	+	Silent	SNP	C	T	T	rs145873782		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:59282922C>T	uc010rkv.1	+	1	537	c.537C>T	c.(535-537)TGC>TGT	p.C179C		NM_001004711	NP_001004711	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTTCTACTGCGATGTCCCCC	0.493													28	108					0	0	0.008361	0	0	
ATG2A	23130	broad.mit.edu	37	11	64679671	64679671	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:64679671C>T	uc001obx.2	-	8	1088	c.973G>A	c.(973-975)GAA>AAA	p.E325K		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	325							protein binding			ovary(1)|central_nervous_system(1)	2						CACAGGTCTTCGGCACCTAGC	0.652													15	61					0	0	0.002450	0	0	
DKFZp761E198	91056	broad.mit.edu	37	11	65545526	65545526	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:65545526C>T	uc001ofo.3	-	1	2297	c.2267G>A	c.(2266-2268)CGC>CAC	p.R756H		NM_138368	NP_612377	Q2VPB7	YK046_HUMAN	hypothetical protein LOC91056	756							protein binding				0				READ - Rectum adenocarcinoma(159;0.167)		CTCCAGGTGGCGGGACACCAA	0.637													7	38					0	0	0.001984	0	0	
CNIH2	254263	broad.mit.edu	37	11	66050763	66050763	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:66050763C>T	uc001ohi.1	+	5	588	c.356C>T	c.(355-357)GCG>GTG	p.A119V	CNIH2_uc001ohh.2_Missense_Mutation_p.A119V|CNIH2_uc009yrb.1_RNA	NM_182553	NP_872359	Q6PI25	CNIH2_HUMAN	cornichon homolog 2	119	Cytoplasmic (Potential).				intracellular signal transduction|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic shaft|dendritic spine|endoplasmic reticulum membrane|postsynaptic density|postsynaptic membrane	protein binding				0						ATGTATGATGCGGTCTCCATC	0.547											OREG0021100	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	137					0	0	0.010504	0	0	
TBX10	347853	broad.mit.edu	37	11	67402652	67402652	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:67402652C>T	uc001omp.2	-	2	178	c.90G>A	c.(88-90)CGG>CGA	p.R30R		NM_005995	NP_005986	O75333	TBX10_HUMAN	T-box 10	30					anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GTGACCCCAGCCGGGGCTCCC	0.642													14	44					0	0	0.002450	0	0	
SAPS3	55291	broad.mit.edu	37	11	68338536	68338536	+	Missense_Mutation	SNP	G	A	A	rs148673066		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:68338536G>A	uc001onw.2	+	12	1574	c.1307G>A	c.(1306-1308)CGA>CAA	p.R436Q	SAPS3_uc001onv.2_Missense_Mutation_p.R436Q|SAPS3_uc001ony.3_Missense_Mutation_p.R436Q|SAPS3_uc001onx.2_Missense_Mutation_p.R436Q|SAPS3_uc009ysh.2_Missense_Mutation_p.R385Q|SAPS3_uc001onu.2_Missense_Mutation_p.R385Q|SAPS3_uc010rqc.1_Missense_Mutation_p.R204Q|SAPS3_uc010rqd.1_Missense_Mutation_p.R148Q	NM_001164161	NP_001157633	Q5H9R7	PP6R3_HUMAN	SAPS domain family, member 3 isoform 6	436					regulation of phosphoprotein phosphatase activity	cytoplasm|nucleus	protein phosphatase binding				0			LUAD - Lung adenocarcinoma(13;0.102)			TTAATAGAACGAATACTTGAA	0.284													5	25					0	0	0.001984	0	0	
MRGPRD	116512	broad.mit.edu	37	11	68748320	68748320	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:68748320T>G	uc010rqf.1	-	1	136	c.136A>C	c.(136-138)AGC>CGC	p.S46R		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	46	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			ATCACCATGCTGTTGCCTGCC	0.582													6	35					0	0	0.001168	0	0	
TPCN2	219931	broad.mit.edu	37	11	68835058	68835058	+	Missense_Mutation	SNP	G	A	A	rs142288453	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:68835058G>A	uc001oos.2	+	8	930	c.814G>A	c.(814-816)GCC>ACC	p.A272T	TPCN2_uc009ysk.1_Intron|TPCN2_uc001oor.2_Missense_Mutation_p.A187T|TPCN2_uc010rqg.1_Missense_Mutation_p.A272T	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	272					cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			GCTGACCACGGCCAACAACCC	0.637													15	30					0	0	0.003163	0	0	
CTTN	2017	broad.mit.edu	37	11	70266595	70266595	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:70266595C>T	uc001opv.3	+	10	975	c.769C>T	c.(769-771)CAG>TAG	p.Q257*	CTTN_uc001opu.2_Nonsense_Mutation_p.Q257*|CTTN_uc001opw.3_Nonsense_Mutation_p.Q257*|CTTN_uc010rqm.1_5'UTR|CTTN_uc001opx.2_5'Flank	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	257	Cortactin 5.					cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		GGAGAAATTGCAGCTGCATGA	0.448													14	40					0	0	0.002450	0	0	
FOLR1	2348	broad.mit.edu	37	11	71906954	71906954	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:71906954C>T	uc001orz.1	+	6	645	c.507C>T	c.(505-507)TGC>TGT	p.C169C	FOLR1_uc001osa.1_Silent_p.C169C|FOLR1_uc001osb.1_Silent_p.C169C|FOLR1_uc001osc.1_Silent_p.C169C|FOLR1_uc001osd.1_Silent_p.C169C	NM_016724	NP_057936	P15328	FOLR1_HUMAN	folate receptor 1 precursor	169					cell death|folic acid transport|receptor-mediated endocytosis	anchored to membrane|extracellular region|integral to plasma membrane|membrane fraction	folic acid binding|receptor activity			ovary(1)	1						TTAACAAGTGCGCAGTGGGAG	0.512													5	74					0	0	0.000602	0	0	
RELT	84957	broad.mit.edu	37	11	73106534	73106534	+	Nonstop_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:73106534T>C	uc001otv.2	+	11	1456	c.1291T>C	c.(1291-1293)TGA>CGA	p.*431R	RELT_uc001otw.2_Nonstop_Mutation_p.*431R|RELT_uc001otx.2_RNA	NM_152222	NP_689408	Q969Z4	TR19L_HUMAN	RELT tumor necrosis factor receptor precursor	431						cytoplasm|integral to membrane|plasma membrane	binding|receptor activity			upper_aerodigestive_tract(1)	1						cctggtcatctgaggggcggt	0.03													11	48					0	0	0.013537	0	0	
NEU3	10825	broad.mit.edu	37	11	74717419	74717419	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:74717419C>T	uc001ovw.2	+	3	1424	c.1268C>T	c.(1267-1269)ACC>ATC	p.T423I	NEU3_uc001ovv.2_Missense_Mutation_p.T413I|NEU3_uc010rrl.1_Missense_Mutation_p.T314I	NM_006656	NP_006647	A8K327	A8K327_HUMAN	sialidase 3	423										ovary(2)	2						GAATGTGGGACCAAGCAAGAG	0.587													16	88					0	0	0.004990	0	0	
PRKRIR	5612	broad.mit.edu	37	11	76062779	76062779	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:76062779C>T	uc001oxh.1	-	5	1415	c.1415G>A	c.(1414-1416)AGT>AAT	p.S472N	PRKRIR_uc010rrz.1_Missense_Mutation_p.S297N	NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	472					negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						TGACACTGCACTGCAGAGTAC	0.368													14	69					0	0	0.003163	0	0	
LRRC32	2615	broad.mit.edu	37	11	76372210	76372210	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:76372210G>A	uc001oxq.3	-	3	670	c.427C>T	c.(427-429)CGG>TGG	p.R143W	LRRC32_uc001oxr.3_Missense_Mutation_p.R143W|LRRC32_uc010rsf.1_Missense_Mutation_p.R143W	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	143	Extracellular (Potential).|LRR 4.					integral to plasma membrane					0						CCCAGCAGCCGCTCCAGCAGG	0.687													8	28					0	0	0.004482	0	0	
CCDC90B	60492	broad.mit.edu	37	11	82989836	82989836	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:82989836G>A	uc001pae.2	-	3	619	c.257C>T	c.(256-258)GCG>GTG	p.A86V	CCDC90B_uc001pac.2_5'UTR|CCDC90B_uc001pad.2_5'UTR|CCDC90B_uc001paf.2_Missense_Mutation_p.A77V	NM_021825	NP_068597	Q9GZT6	CC90B_HUMAN	coiled-coil domain containing 90B precursor	86						integral to membrane|mitochondrion|mitochondrion					0		Acute lymphoblastic leukemia(157;0.103)				AGCAGTTAACGCTGATACAAT	0.333													11	84					0	0	0.013537	0	0	
HEPHL1	341208	broad.mit.edu	37	11	93796776	93796776	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:93796776C>T	uc001pep.2	+	3	675	c.518C>T	c.(517-519)GCA>GTA	p.A173V		NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	173	Plastocyanin-like 1.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				GAAGAATATGCACCTACTCCA	0.537													7	55					0	0	0.003080	0	0	
KBTBD3	143879	broad.mit.edu	37	11	105929633	105929633	+	Silent	SNP	C	T	T	rs73554750	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:105929633C>T	uc001pja.2	-	3	832	c.192G>A	c.(190-192)CCG>CCA	p.P64P	KBTBD3_uc001pjb.2_Silent_p.P64P|KBTBD3_uc009yxm.2_Intron	NM_198439	NP_940841	Q8NAB2	KBTB3_HUMAN	BTB and kelch domain containing 3	60	BTB.									ovary(1)|central_nervous_system(1)	2		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		AACGATGACACGGGATTATTT	0.303													7	35					0	0	0.001984	0	0	
ATM	472	broad.mit.edu	37	11	108160475	108160475	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:108160475G>T	uc001pkb.1	+	29	4768	c.4383G>T	c.(4381-4383)TGG>TGT	p.W1461C	ATM_uc009yxr.1_Missense_Mutation_p.W1461C|ATM_uc001pkd.3_Missense_Mutation_p.W113C|ATM_uc001pke.1_Missense_Mutation_p.W113C|ATM_uc010rvw.1_Missense_Mutation_p.W113C|ATM_uc001pkf.2_Missense_Mutation_p.W113C	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1461					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GAGGAGCTTGGGCCTTTGTTC	0.299			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			9	39					0.000442599	0.000461331	0.006214	1	0	
ZC3H12C	85463	broad.mit.edu	37	11	110035729	110035729	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:110035729A>G	uc009yxw.2	+	6	1970	c.1919A>G	c.(1918-1920)TAC>TGC	p.Y640C	ZC3H12C_uc010rwc.1_Missense_Mutation_p.Y641C|ZC3H12C_uc010rwd.1_Missense_Mutation_p.Y641C|ZC3H12C_uc001pkr.3_Missense_Mutation_p.Y609C	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	640							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		AGTGACTCCTACGTGGGTTAC	0.512													13	57					0	0	0.013537	0	0	
ARHGAP20	57569	broad.mit.edu	37	11	110451319	110451319	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:110451319C>T	uc001pkz.1	-	16	2636	c.2351G>A	c.(2350-2352)GGT>GAT	p.G784D	ARHGAP20_uc001pky.1_Missense_Mutation_p.G761D|ARHGAP20_uc009yyb.1_Missense_Mutation_p.G748D|ARHGAP20_uc001pla.1_Missense_Mutation_p.G748D|ARHGAP20_uc001plb.2_Missense_Mutation_p.G327D	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	784					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		TCCTTCACTACCAGACAAGCT	0.413													12	99					0	0	0.013537	0	0	
USP28	57646	broad.mit.edu	37	11	113699980	113699980	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:113699980G>A	uc001poh.2	-	10	1031	c.998C>T	c.(997-999)GCC>GTC	p.A333V	USP28_uc001pog.2_Missense_Mutation_p.A41V|USP28_uc010rwy.1_Missense_Mutation_p.A208V|USP28_uc001poi.2_5'UTR|USP28_uc001poj.3_Missense_Mutation_p.A333V	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	333					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		CTCCACCATGGCCCCTTCCAA	0.478													10	38					0	0	0.010729	0	0	
IL10RA	3587	broad.mit.edu	37	11	117869725	117869725	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:117869725A>C	uc001prv.2	+	7	1183	c.1106A>C	c.(1105-1107)GAC>GCC	p.D369A	IL10RA_uc010rxl.1_Missense_Mutation_p.D349A|IL10RA_uc010rxm.1_Missense_Mutation_p.D349A|IL10RA_uc010rxn.1_Missense_Mutation_p.D220A|IL10RA_uc001prw.2_Missense_Mutation_p.D220A	NM_001558	NP_001549	Q13651	I10R1_HUMAN	interleukin 10 receptor, alpha precursor	369	Cytoplasmic (Potential).					integral to membrane|plasma membrane	interleukin-10 receptor activity			ovary(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)|Epithelial(105;0.00108)		AATAGCACAGACAGCGGGATC	0.662													6	22					0	0	0.001168	0	0	
MPZL3	196264	broad.mit.edu	37	11	118122995	118122995	+	Silent	SNP	T	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:118122995T>G	uc001psm.2	-	1	17	c.15A>C	c.(13-15)GGA>GGC	p.G5G	MPZL3_uc010rxy.1_Silent_p.G5G|MPZL3_uc010rxz.1_RNA|MPZL3_uc009yzy.2_RNA	NM_198275	NP_938016	Q6UWV2	MPZL3_HUMAN	myelin protein zero-like 3 precursor	5					cell adhesion	integral to membrane					0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		TTCCAGCTGCTCCTCTCTGCT	0.622													7	53					0	0	0.001984	0	0	
MLL	4297	broad.mit.edu	37	11	118343010	118343010	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:118343010C>T	uc001pta.2	+	3	1159	c.1136C>T	c.(1135-1137)GCA>GTA	p.A379V	MLL_uc001ptb.2_Missense_Mutation_p.A379V|MLL_uc001psz.1_Missense_Mutation_p.A412V|MLL_uc001ptd.1_Intron	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	379					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TTACAGAGGGCAAAAAAGGGG	0.423			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								15	52					0	0	0.003163	0	0	
MFRP	83552	broad.mit.edu	37	11	119212679	119212679	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:119212679G>T	uc001pwj.2	-	12	1563	c.1403C>A	c.(1402-1404)CCT>CAT	p.P468H	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Intron	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		CACCTGGACAGGCTCACAGGC	0.622													4	40					0.000602214	0.000627085	0.000602	1	0	
GRIK4	2900	broad.mit.edu	37	11	120827494	120827494	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:120827494C>T	uc001pxn.2	+	16	1993	c.1706C>T	c.(1705-1707)ACG>ATG	p.T569M	GRIK4_uc009zav.1_Missense_Mutation_p.T569M|GRIK4_uc009zaw.1_Missense_Mutation_p.T569M|GRIK4_uc009zax.1_Missense_Mutation_p.T569M	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	569	Cytoplasmic (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	CACAGGTTGACGCCCTACGAG	0.418													11	63					0	0	0.010729	0	0	
TECTA	7007	broad.mit.edu	37	11	121016339	121016339	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:121016339G>A	uc010rzo.1	+	11	3619	c.3619G>A	c.(3619-3621)GTG>ATG	p.V1207M		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1207	VWFD 3.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TGGCTTCCACGTGGTGGTGGA	0.502													20	142					0	0	0.008871	0	0	
C11orf63	79864	broad.mit.edu	37	11	122817342	122817342	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:122817342G>A	uc001pym.2	+	6	2068	c.1771G>A	c.(1771-1773)GTC>ATC	p.V591I		NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	591										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		CTTATCCAGCGTCACGCTTCC	0.502													11	41					0	0	0.008291	0	0	
SRPR	6734	broad.mit.edu	37	11	126135176	126135176	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:126135176G>A	uc001qdh.2	-	10	1349	c.1298C>T	c.(1297-1299)ACT>ATT	p.T433I	SRPR_uc010sbm.1_Missense_Mutation_p.T405I	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	433					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		GGCAAGATTAGTAGATTTCCC	0.507													8	37					0	0	0.004482	0	0	
KIRREL3	84623	broad.mit.edu	37	11	126314880	126314880	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:126314880C>T	uc001qea.2	-	10	1607	c.1246G>A	c.(1246-1248)GTC>ATC	p.V416I	KIRREL3_uc001qeb.2_Missense_Mutation_p.V416I|KIRREL3_uc001qec.1_Missense_Mutation_p.V416I	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	416	Extracellular (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		TTACCATTGACGGTCAGGGTC	0.652													9	47					0	0	0.004482	0	0	
ETS1	2113	broad.mit.edu	37	11	128391832	128391832	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:128391832C>T	uc010sbs.1	-	1	374	c.58G>A	c.(58-60)GAT>AAT	p.D20N	ETS1_uc001qej.2_Intron|ETS1_uc009zch.2_Missense_Mutation_p.D20N|ETS1_uc009zcg.2_Missense_Mutation_p.D20N	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	20					cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		AGCTCCAGATCGACTTTTTCC	0.627													4	43					0	0	0.009096	0	0	
ARHGAP32	9743	broad.mit.edu	37	11	128842462	128842462	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr11:128842462C>T	uc009zcp.2	-	21	3897	c.3897G>A	c.(3895-3897)ACG>ACA	p.T1299T	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Silent_p.T258T|ARHGAP32_uc001qez.2_Silent_p.T950T	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1299					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TAGTTCTGTGCGTGCGCTGAA	0.552													13	60					0	0	0.013537	0	0	
C12orf32	83695	broad.mit.edu	37	12	2997147	2997147	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:2997147G>A	uc001qlh.2	+	3	407	c.239G>A	c.(238-240)AGA>AAA	p.R80K	TULP3_uc010sef.1_Intron|TULP3_uc009zec.1_5'Flank|TULP3_uc010seg.1_5'Flank|TULP3_uc001qlj.2_5'Flank|TULP3_uc010seh.1_5'Flank|TULP3_uc010sei.1_5'Flank|C12orf32_uc010see.1_Missense_Mutation_p.R66K|C12orf32_uc001qli.2_5'UTR	NR_027363				RecName: Full=Uncharacterized protein C12orf32;												0			OV - Ovarian serous cystadenocarcinoma(31;0.000622)			AACCGGGCGAGACACTCAAGT	0.453													10	24					0	0	0.008291	0	0	
KCNA1	3736	broad.mit.edu	37	12	5021217	5021217	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:5021217G>A	uc001qnh.2	+	2	1778	c.673G>A	c.(673-675)GAA>AAA	p.E225K		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	225	Helical; Name=Segment S2; (Potential).				synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CTTCATCGTGGAAACGCTGTG	0.512													8	65					0	0	0.003080	0	0	
VWF	7450	broad.mit.edu	37	12	6120863	6120863	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:6120863C>T	uc001qnn.1	-	34	6012	c.5762G>A	c.(5761-5763)CGG>CAG	p.R1921Q	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1921					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CCTCAGCCCCCGGTCACAGTT	0.617													5	18					0	0	0.000602	0	0	
CHD4	1108	broad.mit.edu	37	12	6703729	6703729	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:6703729A>G	uc001qpo.2	-	15	2373	c.2209T>C	c.(2209-2211)TTG>CTG	p.L737L	CHD4_uc001qpn.2_Silent_p.L730L|CHD4_uc001qpp.2_Silent_p.L734L	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	737					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						GAGAAGCGCAACCAATTCAGG	0.517													12	48					0	0	0.013537	0	0	
LPAR5	57121	broad.mit.edu	37	12	6729440	6729440	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:6729440C>T	uc009zer.2	-	2	1256	c.975G>A	c.(973-975)ACG>ACA	p.T325T	LPAR5_uc001qps.2_Silent_p.T325T|LPAR5_uc010sff.1_Silent_p.T325T	NM_001142961	NP_001136433	Q9H1C0	LPAR5_HUMAN	lysophosphatidic acid receptor 5	325	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2						GCGCCGCCCGCGTCCCGTTGG	0.716													3	13					0	0	0.004672	0	0	
ENO2	2026	broad.mit.edu	37	12	7030885	7030885	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:7030885C>T	uc001qru.1	+	9	1229	c.1007C>T	c.(1006-1008)GCC>GTC	p.A336V	ENO2_uc009zfi.1_Missense_Mutation_p.A336V|ENO2_uc010sfq.1_Missense_Mutation_p.A293V|ENO2_uc001qrv.1_Missense_Mutation_p.A336V|ATN1_uc001qrw.1_5'Flank	NM_001975	NP_001966	P09104	ENOG_HUMAN	enolase 2	336					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex|plasma membrane	magnesium ion binding|phosphopyruvate hydratase activity				0						GAAGAAAAGGCCTGCAACTGT	0.547													11	47					0	0	0.010729	0	0	
PHB2	11331	broad.mit.edu	37	12	7075615	7075615	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:7075615G>A	uc001qsd.2	-	8	1048	c.838C>T	c.(838-840)CTG>TTG	p.L280L	PHB2_uc010sft.1_Silent_p.L242L|PHB2_uc001qse.1_RNA|PHB2_uc001qsf.1_RNA|PHB2_uc009zfn.1_Intron	NM_001144831	NP_001138303	Q99623	PHB2_HUMAN	prohibitin 2 isoform 1	280					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial inner membrane|nucleus	estrogen receptor binding|receptor activity			ovary(2)|pancreas(1)	3						TGTAGGTTCAGCACAAGGTTG	0.483													14	61					0	0	0.002450	0	0	
FAM90A1	55138	broad.mit.edu	37	12	8374554	8374554	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:8374554G>A	uc001qui.2	-	7	1818	c.1259C>T	c.(1258-1260)CCG>CTG	p.P420L	FAM90A1_uc001quh.2_Missense_Mutation_p.P420L	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	420							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		GAAGGCTCCCGGCTTCTCAGG	0.602													6	26					0	0	0.001168	0	0	
MFAP5	8076	broad.mit.edu	37	12	8803134	8803134	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:8803134G>A	uc001qut.1	-	8	512	c.299C>T	c.(298-300)CCG>CTG	p.P100L	MFAP5_uc001qus.2_Missense_Mutation_p.P90L|MFAP5_uc009zge.1_Missense_Mutation_p.P75L	NM_003480	NP_003471	Q13361	MFAP5_HUMAN	microfibrillar associated protein 5 precursor	100						microfibril	extracellular matrix structural constituent			breast(1)	1	Lung SC(5;0.184)					TTGTTTAACCGGCCGATGCAC	0.433													9	53					0	0	0.010729	0	0	
A2ML1	144568	broad.mit.edu	37	12	8988128	8988128	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:8988128A>C	uc001quz.3	+	6	607	c.509A>C	c.(508-510)CAG>CCG	p.Q170P		NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	14						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						AGGATTGCACAGTGGCTGGAA	0.522													5	59					0	0	0.000602	0	0	
STYK1	55359	broad.mit.edu	37	12	10782235	10782235	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:10782235G>A	uc001qys.2	-	6	1011	c.490C>T	c.(490-492)CGA>TGA	p.R164*		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	164	Protein kinase.					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						AATTGGATTCGCCCTAAGAAA	0.512										HNSCC(73;0.22)			10	35					0	0	0.006214	0	0	
GRIN2B	2904	broad.mit.edu	37	12	13716277	13716277	+	Missense_Mutation	SNP	G	A	A	rs45540034		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:13716277G>A	uc001rbt.2	-	13	4074	c.3895C>T	c.(3895-3897)CGC>TGC	p.R1299C		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1299	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TGCTGCCGGCGCAGTTTGTTC	0.612													14	98					0	0	0.003163	0	0	
C12orf69	440087	broad.mit.edu	37	12	14959221	14959221	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:14959221C>T	uc001rck.1	-	2	467	c.394G>A	c.(394-396)GCT>ACT	p.A132T	WBP11_uc001rci.2_5'Flank|C12orf60_uc001rcj.3_Intron	NM_001013698	NP_001013720	A2RU48	CL069_HUMAN	hypothetical protein LOC440087	132						integral to membrane					0						AGTTTAACAGCGACTGCACTG	0.418													7	98					0	0	0.003080	0	0	
TMTC1	83857	broad.mit.edu	37	12	29757135	29757135	+	Missense_Mutation	SNP	G	A	A	rs144467040		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:29757135G>A	uc001rjb.2	-	7	1376	c.902C>T	c.(901-903)GCG>GTG	p.A301V	TMTC1_uc001riz.2_Missense_Mutation_p.A58V|TMTC1_uc001rja.2_Missense_Mutation_p.A145V|TMTC1_uc001rjc.1_Missense_Mutation_p.A363V	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	409	Helical; (Potential).					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					GACTCTCTCCGCCACCACAAA	0.507													4	36					0	0	0.000602	0	0	
DDX11	1663	broad.mit.edu	37	12	31245812	31245812	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:31245812C>T	uc001rjt.1	+	11	1526	c.1275C>T	c.(1273-1275)TAC>TAT	p.Y425Y	DDX11_uc010sjx.1_RNA|DDX11_uc001rjr.1_Silent_p.Y425Y|DDX11_uc001rjs.1_Silent_p.Y425Y|DDX11_uc001rju.1_Silent_p.Y103Y|DDX11_uc001rjv.1_Silent_p.Y425Y|DDX11_uc001rjw.1_Silent_p.Y399Y|DDX11_uc001rjx.1_Silent_p.Y103Y|DDX11_uc009zjn.1_RNA	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	425	Helicase ATP-binding.				G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					TGCTGCAGTACGTGGAGCGAT	0.587										Multiple Myeloma(12;0.14)			4	41					0	0	0.000602	0	0	
BICD1	636	broad.mit.edu	37	12	32446952	32446952	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:32446952A>G	uc001rku.2	+	3	532	c.451A>G	c.(451-453)AGA>GGA	p.R151G	BICD1_uc001rkv.2_Missense_Mutation_p.R151G|BICD1_uc010skd.1_RNA	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	151	Potential.				anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			GGAGCTACAGAGAATACGGAT	0.383													6	40					0	0	0.001984	0	0	
BICD1	636	broad.mit.edu	37	12	32490545	32490545	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:32490545G>A	uc001rku.2	+	7	2446	c.2365G>A	c.(2365-2367)GCC>ACC	p.A789T	BICD1_uc001rkv.2_Missense_Mutation_p.A789T|BICD1_uc010skd.1_RNA|BICD1_uc001rkw.1_Missense_Mutation_p.A71T	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	789	Potential.|Interacts with RAB6A.				anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			GCAAAAACTCGCCCTGACCCA	0.502													8	39					0	0	0.003080	0	0	
FGD4	121512	broad.mit.edu	37	12	32777996	32777996	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:32777996G>T	uc001rkz.2	+	13	2106	c.1629G>T	c.(1627-1629)GAG>GAT	p.E543D	FGD4_uc001rlc.2_Missense_Mutation_p.E628D|FGD4_uc001rky.2_Missense_Mutation_p.E295D|FGD4_uc001rla.2_Missense_Mutation_p.E199D|FGD4_uc010ske.1_Missense_Mutation_p.E655D|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	543					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					TTCACTCAGAGGTTTCTGTGA	0.358													11	93					1.58986e-06	1.71278e-06	0.008291	1	0	
KIF21A	55605	broad.mit.edu	37	12	39756911	39756911	+	Silent	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:39756911G>T	uc001rly.2	-	7	1154	c.1008C>A	c.(1006-1008)CTC>CTA	p.L336L	KIF21A_uc001rlx.2_Silent_p.L336L|KIF21A_uc001rlz.2_Silent_p.L336L|KIF21A_uc010skl.1_Silent_p.L336L|KIF21A_uc001rma.1_Silent_p.L344L	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	336					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TATTACCCCCGAGGGAATCCT	0.378													15	87					4.7546e-09	5.23946e-09	0.004007	1	0	
PDZRN4	29951	broad.mit.edu	37	12	41966842	41966842	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:41966842G>A	uc010skn.1	+	10	1732	c.1664G>A	c.(1663-1665)CGT>CAT	p.R555H	PDZRN4_uc001rmq.3_Missense_Mutation_p.R496H|PDZRN4_uc009zjz.2_Missense_Mutation_p.R494H|PDZRN4_uc001rmr.2_Missense_Mutation_p.R381H	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	754							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				ACTGTAGACCGTTCCCCTGAC	0.502													16	92					0	0	0.003163	0	0	
PRICKLE1	144165	broad.mit.edu	37	12	42854270	42854270	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:42854270G>A	uc010skv.1	-	8	2124	c.1837C>T	c.(1837-1839)CCA>TCA	p.P613S	PRICKLE1_uc001rnl.2_Missense_Mutation_p.P613S|PRICKLE1_uc010skw.1_Missense_Mutation_p.P613S|PRICKLE1_uc001rnm.2_Missense_Mutation_p.P613S|PRICKLE1_uc001rnk.1_5'Flank	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	613					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		AGATGTACTGGCTTCTCTTCA	0.458													14	93					0	0	0.004990	0	0	
ANO6	196527	broad.mit.edu	37	12	45771877	45771877	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:45771877A>G	uc001roo.2	+	10	1481	c.1146A>G	c.(1144-1146)GCA>GCG	p.A382A	ANO6_uc010sld.1_Silent_p.A382A|ANO6_uc010sle.1_Silent_p.A382A|ANO6_uc010slf.1_Silent_p.A403A|ANO6_uc010slg.1_Silent_p.A364A	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	382	Helical; (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						TGGTCTTTGCAGTATTTATGG	0.323													13	65					0	0	0.001855	0	0	
ANO6	196527	broad.mit.edu	37	12	45822989	45822989	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:45822989G>T	uc001roo.2	+	20	2963	c.2628G>T	c.(2626-2628)AAG>AAT	p.K876N	ANO6_uc010sld.1_Intron|ANO6_uc010sle.1_Intron|ANO6_uc010slf.1_Missense_Mutation_p.K897N|ANO6_uc010slg.1_Missense_Mutation_p.K858N	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	876	Cytoplasmic (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						TAACCCAAAAGCTTCTTCATG	0.383													7	35					0.000157383	0.000165019	0.003080	1	0	
ASB8	140461	broad.mit.edu	37	12	48547247	48547247	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:48547247G>A	uc001rrh.2	-	2	202	c.33C>T	c.(31-33)AGC>AGT	p.S11S	ASB8_uc010slr.1_Silent_p.S7S	NM_024095	NP_077000	Q9H765	ASB8_HUMAN	ankyrin repeat and SOCS box-containing 8	11					intracellular signal transduction	cytoplasm|nucleus				kidney(1)	1						TGCTCTGAATGCTCTGCATAA	0.443													13	74					0	0	0.013537	0	0	
CCNT1	904	broad.mit.edu	37	12	49086828	49086828	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:49086828G>A	uc001rse.1	-	9	2492	c.2169C>T	c.(2167-2169)CCC>CCT	p.P723P	LOC144438_uc001rsd.3_5'Flank|CCNT1_uc009zkz.1_Silent_p.P438P	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	723	Pro-rich.				cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						ACTTAGGAAGGGGTGGAAGTG	0.388													5	19					0	0	0.000602	0	0	
ADCY6	112	broad.mit.edu	37	12	49176653	49176653	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:49176653C>T	uc001rsh.3	-	1	1225	c.565G>A	c.(565-567)GCC>ACC	p.A189T	ADCY6_uc001rsj.3_Missense_Mutation_p.A189T|ADCY6_uc001rsi.3_Missense_Mutation_p.A189T	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	189	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						ACGAACAGGGCGGCGGCACAG	0.667													7	21					0	0	0.001984	0	0	
MLL2	8085	broad.mit.edu	37	12	49444688	49444688	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:49444688C>T	uc001rta.3	-	10	2778	c.2778G>A	c.(2776-2778)TCG>TCA	p.S926S		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	926	Pro-rich.			Missing (in Ref. 1; AAC51734).	chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TCAGCTGAGGCGACAAGGATG	0.547			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			17	73					0	0	0.006122	0	0	
AQP5	362	broad.mit.edu	37	12	50357276	50357276	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:50357276T>G	uc001rvo.2	+	2	887	c.365T>G	c.(364-366)CTC>CGC	p.L122R		NM_001651	NP_001642	P55064	AQP5_HUMAN	aquaporin 5	122	Extracellular (Potential).				carbon dioxide transport|excretion|odontogenesis|pancreatic juice secretion	apical plasma membrane|integral to plasma membrane	protein binding|water channel activity				0						CCCTTGCAGCTCAACAACAAC	0.617													18	82					0	0	0.004990	0	0	
ESPL1	9700	broad.mit.edu	37	12	53668729	53668729	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:53668729A>G	uc001sck.2	+	7	1726	c.1635A>G	c.(1633-1635)CCA>CCG	p.P545P	ESPL1_uc001scj.2_Silent_p.P220P	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	545					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						TGGCTGAGCCAGTCACTTTCT	0.478													6	30					0	0	0.001168	0	0	
LRP1	4035	broad.mit.edu	37	12	57592321	57592321	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:57592321G>A	uc001snd.2	+	60	10010	c.9544G>A	c.(9544-9546)GTC>ATC	p.V3182I		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3182	LDL-receptor class B 28.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CAGCCGCAGCGTCATCGTGGA	0.597													4	15					0	0	0.009096	0	0	
SHMT2	6472	broad.mit.edu	37	12	57626343	57626343	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:57626343C>T	uc001snf.1	+	6	712	c.702C>T	c.(700-702)TAC>TAT	p.Y234Y	SHMT2_uc001sng.1_Silent_p.Y130Y|SHMT2_uc001snh.1_Silent_p.Y73Y|SHMT2_uc009zpk.1_Silent_p.Y224Y|SHMT2_uc001sni.1_Silent_p.Y213Y|SHMT2_uc010srg.1_Silent_p.Y243Y|SHMT2_uc001snj.1_Silent_p.Y138Y|SHMT2_uc010srh.1_Silent_p.Y213Y|SHMT2_uc001snk.1_Silent_p.Y138Y|SHMT2_uc010sri.1_Silent_p.Y213Y|SHMT2_uc001snl.2_Silent_p.Y138Y|SHMT2_uc010srj.1_5'Flank	NM_005412	NP_005403	P34897	GLYM_HUMAN	serine hydroxymethyltransferase 2	234						microtubule cytoskeleton|mitochondrial nucleoid	glycine hydroxymethyltransferase activity|methyltransferase activity			ovary(1)|central_nervous_system(1)	2					Glycine(DB00145)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	TCATTGACTACGCCCGCATGA	0.642													18	106					0	0	0.008871	0	0	
FRS2	10818	broad.mit.edu	37	12	69968091	69968091	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:69968091C>T	uc001suy.2	+	10	1393	c.883C>T	c.(883-885)CGA>TGA	p.R295*	FRS2_uc001suz.2_Nonsense_Mutation_p.R295*|FRS2_uc009zrj.2_Nonsense_Mutation_p.R295*|FRS2_uc009zrk.2_Nonsense_Mutation_p.R295*	NM_006654	NP_006645	Q8WU20	FRS2_HUMAN	fibroblast growth factor receptor substrate 2	295					activation of MAPKK activity|activation of phospholipase C activity|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|transmembrane receptor protein tyrosine phosphatase signaling pathway	endomembrane system|endosome|integral to plasma membrane|membrane fraction	fibroblast growth factor receptor binding|insulin receptor binding|phosphatase activator activity|transmembrane receptor protein tyrosine kinase adaptor activity			prostate(1)|kidney(1)	2	Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.94e-18)|Lung(24;9.68e-05)|OV - Ovarian serous cystadenocarcinoma(12;0.000984)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			CAGTGATGAACGAAGAGATGC	0.443													14	62					0	0	0.004007	0	0	
TMTC2	160335	broad.mit.edu	37	12	83250837	83250837	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:83250837G>A	uc001szt.2	+	2	564	c.132G>A	c.(130-132)ACG>ACA	p.T44T	TMTC2_uc001szr.1_Silent_p.T44T|TMTC2_uc001szs.1_Silent_p.T44T|TMTC2_uc010suk.1_Intron	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	44						endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						CTCCATGGACGCACATTTTCT	0.423													17	106					0	0	0.012319	0	0	
SLC6A15	55117	broad.mit.edu	37	12	85264301	85264301	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:85264301G>A	uc001szv.2	-	9	1944	c.1451C>T	c.(1450-1452)ACG>ATG	p.T484M	SLC6A15_uc010sul.1_Missense_Mutation_p.T377M|SLC6A15_uc001szw.1_Missense_Mutation_p.T192M	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	484					cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						CACAATAGGCGTGACAATCCC	0.403													14	58					0	0	0.001855	0	0	
CEP290	80184	broad.mit.edu	37	12	88478558	88478558	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:88478558A>G	uc001tar.2	-	35	4853	c.4509T>C	c.(4507-4509)AAT>AAC	p.N1503N	CEP290_uc001taq.2_Silent_p.N563N	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1503					cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						GCCTCAGTTCATTGATTACTT	0.353													4	23					0	0	0.009096	0	0	
ATP2B1	490	broad.mit.edu	37	12	90028814	90028814	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:90028814T>C	uc001tbh.2	-	3	802	c.621A>G	c.(619-621)GTA>GTG	p.V207V	ATP2B1_uc001tbg.2_Silent_p.V207V	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	207	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TAATGTCAGCTACAGGTATCT	0.378													12	85					0	0	0.013537	0	0	
PLXNC1	10154	broad.mit.edu	37	12	94648663	94648663	+	Silent	SNP	C	T	T	rs115290199	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:94648663C>T	uc001tdc.2	+	16	3231	c.2982C>T	c.(2980-2982)GAC>GAT	p.D994D	PLXNC1_uc010sut.1_Silent_p.D41D	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	994	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						AGATACGTGACGGTAGGCTCC	0.433													3	12					0	0	0.004672	0	0	
APAF1	317	broad.mit.edu	37	12	99102474	99102474	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:99102474C>T	uc001tfz.2	+	20	3410	c.2833C>T	c.(2833-2835)CGT>TGT	p.R945C	APAF1_uc001tfy.2_Missense_Mutation_p.R934C|APAF1_uc001tga.2_Missense_Mutation_p.R891C|APAF1_uc001tgb.2_Missense_Mutation_p.R902C|APAF1_uc001tgc.2_Intron|APAF1_uc009zto.2_Missense_Mutation_p.R311C	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	945					activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	CCATATAAGACGTCTGCAAGT	0.318													5	18					0	0	0.000602	0	0	
NUAK1	9891	broad.mit.edu	37	12	106461214	106461214	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:106461214G>A	uc001tlj.1	-	7	2732	c.1352C>T	c.(1351-1353)CCG>CTG	p.P451L		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	451							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						GAGTTTTCCCGGCACCTCTGC	0.557													11	35					0	0	0.010729	0	0	
POLR3B	55703	broad.mit.edu	37	12	106786837	106786837	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:106786837T>C	uc001tlp.2	+	10	974	c.752T>C	c.(751-753)ATT>ACT	p.I251T	POLR3B_uc001tlq.2_Missense_Mutation_p.I193T	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	251					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						GACCAGGAAATTGTGCAGATG	0.453													15	85					0	0	0.002450	0	0	
SELPLG	6404	broad.mit.edu	37	12	109016933	109016933	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:109016933A>G	uc001tni.2	-	2	1311	c.1151T>C	c.(1150-1152)CTG>CCG	p.L384P	SELPLG_uc001tnh.2_Missense_Mutation_p.L374P|SELPLG_uc010sxe.1_Missense_Mutation_p.L400P	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	384	Cytoplasmic (Potential).				blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0						GGCCTTGGACAGGCCCCCATT	0.637													4	15					0	0	0.009096	0	0	
SSH1	54434	broad.mit.edu	37	12	109192889	109192889	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:109192889G>A	uc001tnm.2	-	13	1323	c.1236C>T	c.(1234-1236)TTC>TTT	p.F412F	SSH1_uc001tnl.2_Silent_p.F100F|SSH1_uc010sxg.1_Silent_p.F423F|SSH1_uc001tnn.3_Silent_p.F412F	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	412	Tyrosine-protein phosphatase.				actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						GAGGCCAGCCGAATTCCTTCA	0.542													4	23					0	0	0.009096	0	0	
ACACB	32	broad.mit.edu	37	12	109704115	109704115	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:109704115G>A	uc001tob.2	+	53	7444	c.7325G>A	c.(7324-7326)CGG>CAG	p.R2442Q	ACACB_uc001toc.2_Missense_Mutation_p.R2442Q|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.R1108Q	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	2442					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CCAGCTGAGCGGGCGCAGGTC	0.652													7	41					0	0	0.001984	0	0	
MYL2	4633	broad.mit.edu	37	12	111348961	111348961	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:111348961C>T	uc001try.3	-	7	492	c.421G>A	c.(421-423)GCC>ACC	p.A141T	MYL2_uc001trx.3_Missense_Mutation_p.A122T	NM_000432	NP_000423	P10916	MLRV_HUMAN	slow cardiac myosin regulatory light chain 2	141	EF-hand 3.				cardiac myofibril assembly|heart contraction|muscle filament sliding|negative regulation of cell growth|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	cytosol|myosin complex|sarcomere	actin monomer binding|calcium ion binding|myosin heavy chain binding|structural constituent of muscle			ovary(1)	1						GGGGGGAAGGCGGCGAACATC	0.627													9	73					0	0	0.008291	0	0	
NAA25	80018	broad.mit.edu	37	12	112485518	112485518	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:112485518G>A	uc001ttm.2	-	17	1977	c.1957C>T	c.(1957-1959)CGA>TGA	p.R653*	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Nonsense_Mutation_p.R625*|NAA25_uc009zwa.1_Nonsense_Mutation_p.R653*	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	653						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						CTGTTGTCTCGCAAATCTTCC	0.353													31	160					0	0	0.004878	0	0	
NOS1	4842	broad.mit.edu	37	12	117664550	117664550	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:117664550G>A	uc001twm.1	-	24	4328	c.3642C>T	c.(3640-3642)GGC>GGT	p.G1214G		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1214	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	AGGAGCATACGCCGTGGTGAA	0.542													6	38					0	0	0.001984	0	0	
MLXIP	22877	broad.mit.edu	37	12	122614587	122614587	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:122614587G>A	uc001ubq.2	+	6	838	c.838G>A	c.(838-840)GAA>AAA	p.E280K	MLXIP_uc001ubr.2_Missense_Mutation_p.E31K|MLXIP_uc001ubs.1_5'Flank	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein	280	Required for cytoplasmic localization.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		GCTCATGTCGGAATTCAGCGA	0.582													10	27					0	0	0.006214	0	0	
VPS33A	65082	broad.mit.edu	37	12	122723199	122723199	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:122723199G>A	uc001ucd.2	-	10	1350	c.1237C>T	c.(1237-1239)CAA>TAA	p.Q413*	VPS33A_uc001ucc.2_RNA	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	413					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		CACACGGATTGGAGGCAAACT	0.338													12	110					0	0	0.013537	0	0	
CLIP1	6249	broad.mit.edu	37	12	122845598	122845598	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:122845598C>T	uc001ucg.1	-	4	1019	c.913G>A	c.(913-915)GCC>ACC	p.A305T	CLIP1_uc001uch.1_Missense_Mutation_p.A305T|CLIP1_uc001uci.1_Missense_Mutation_p.A305T|CLIP1_uc001ucj.1_Missense_Mutation_p.A6T|CLIP1_uc010tae.1_Missense_Mutation_p.A305T	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	305	Ser-rich.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TTCAGGCTGGCGGACGTGGTC	0.602													15	35					0	0	0.002450	0	0	
NCOR2	9612	broad.mit.edu	37	12	124827627	124827627	+	Silent	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:124827627G>T	uc010tba.1	-	33	5001	c.4884C>A	c.(4882-4884)GGC>GGA	p.G1628G	NCOR2_uc010tay.1_Silent_p.G1627G|NCOR2_uc010taz.1_Silent_p.G1611G|NCOR2_uc010tbb.1_Silent_p.G1620G|NCOR2_uc010tbc.1_Silent_p.G1610G|NCOR2_uc010tax.1_5'Flank	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1628					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		ACAGGTCCACGCCACTCACGC	0.672													3	19					0.004672	0.00479423	0.004672	1	0	
PIWIL1	9271	broad.mit.edu	37	12	130855769	130855769	+	Silent	SNP	T	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:130855769T>G	uc001uik.2	+	20	2460	c.2370T>G	c.(2368-2370)TCT>TCG	p.S790S	PIWIL1_uc001uij.1_Silent_p.S790S	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	790	Piwi.				gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		GTAGTGTTTCTCCCACACATT	0.448													22	100					0	0	0.004656	0	0	
GALNT9	50614	broad.mit.edu	37	12	132688125	132688125	+	Silent	SNP	G	A	A	rs149887053	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:132688125G>A	uc001ukc.3	-	7	1304	c.1188C>T	c.(1186-1188)AAC>AAT	p.N396N	GALNT9_uc009zyr.2_Silent_p.N170N|GALNT9_uc001ukb.2_Silent_p.N253N|GALNT9_uc001uka.2_Silent_p.N30N	NM_001122636	NP_001116108	Q9HCQ5	GALT9_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	396	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.49e-08)|Epithelial(86;3.55e-07)|all cancers(50;2.09e-05)		CGCGCAGGGCGTTGCGCTTGG	0.642													14	52					0	0	0.001855	0	0	
GOLGA3	2802	broad.mit.edu	37	12	133351739	133351739	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr12:133351739G>A	uc001ukz.1	-	22	4690	c.4131C>T	c.(4129-4131)GGC>GGT	p.G1377G	GOLGA3_uc001ula.1_Silent_p.G1377G	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1377	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		TCTTGGCCGCGCCGCGGCGTA	0.592													7	51					0	0	0.003080	0	0	
TUBA3C	7278	broad.mit.edu	37	13	19751314	19751314	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:19751314G>A	uc009zzj.2	-	4	858	c.809C>T	c.(808-810)GCC>GTC	p.A270V		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	270					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		GGCGTAGGTGGCCAGGGGGAA	0.612													10	115					0	0	0.008291	0	0	
MTUS2	23281	broad.mit.edu	37	13	29600969	29600969	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:29600969G>A	uc001usl.3	+	1	2222	c.2164G>A	c.(2164-2166)GGA>AGA	p.G722R		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	712	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						CTTCAGTTCCGGATTGATGGT	0.483													15	31					0	0	0.004007	0	0	
KIAA0564	23078	broad.mit.edu	37	13	42144798	42144798	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:42144798C>T	uc001uyj.2	-	44	5485	c.5415G>A	c.(5413-5415)ACG>ACA	p.T1805T		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1805	VWFA.					extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		TCCCTTCTAACGTGTGGTCCC	0.423													9	51					0	0	0.004482	0	0	
EPSTI1	94240	broad.mit.edu	37	13	43544769	43544769	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:43544769G>A	uc001uyw.1	-	2	302	c.226C>T	c.(226-228)CGG>TGG	p.R76W	EPSTI1_uc001uyx.1_Missense_Mutation_p.R76W	NM_001002264	NP_001002264	Q96J88	ESIP1_HUMAN	epithelial stromal interaction 1 isoform 1	76	Potential.									ovary(1)	1		Lung NSC(96;3.6e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000528)|BRCA - Breast invasive adenocarcinoma(63;0.0858)		TCATTTCTCCGGTTTATATTT	0.323													21	64					0	0	0.012319	0	0	
PCDH17	27253	broad.mit.edu	37	13	58207391	58207391	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:58207391C>T	uc001vhq.1	+	1	1603	c.711C>T	c.(709-711)AAC>AAT	p.N237N	PCDH17_uc010aec.1_Silent_p.N237N	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	237	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TTGACTCCAACGACAACAGCC	0.602													16	40					0	0	0.004990	0	0	
TBC1D4	9882	broad.mit.edu	37	13	76055542	76055542	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:76055542T>C	uc001vjl.1	-	1	709	c.362A>G	c.(361-363)CAC>CGC	p.H121R	TBC1D4_uc010aer.2_Missense_Mutation_p.H121R|TBC1D4_uc010aes.2_Missense_Mutation_p.H121R	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	121	PID 1.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		CTGCGCCTTGTGCTCGAAGAT	0.667													6	62					0	0	0.001984	0	0	
SLITRK5	26050	broad.mit.edu	37	13	88328684	88328684	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:88328684G>A	uc001vln.2	+	2	1260	c.1041G>A	c.(1039-1041)CGG>CGA	p.R347R	SLITRK5_uc010tic.1_Silent_p.R106R	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	347	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CCACCTCTCGGCAGCCCTCTA	0.592													42	57					0	0	0.007835	0	0	
ABCC4	10257	broad.mit.edu	37	13	95726498	95726498	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:95726498C>T	uc001vmd.3	-	23	3006	c.2887G>A	c.(2887-2889)GTT>ATT	p.V963I	ABCC4_uc010afk.2_Missense_Mutation_p.V916I	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	963	Helical; (Potential).|ABC transmembrane type-1 2.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	CCAAAGGCAACGATGATGACA	0.403													5	19					0	0	0.000602	0	0	
PROZ	8858	broad.mit.edu	37	13	113818958	113818958	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:113818958G>A	uc001vta.1	+	5	512	c.505G>A	c.(505-507)GAC>AAC	p.D169N	PROZ_uc010agr.1_Missense_Mutation_p.D191N	NM_003891	NP_003882	P22891	PROZ_HUMAN	protein Z, vitamin K-dependent plasma	169					blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.216)	all cancers(43;0.104)		Menadione(DB00170)	TGTGCCCCACGGTGAGTGCTC	0.587													5	24					0	0	0.000602	0	0	
OR4Q3	441669	broad.mit.edu	37	14	20215900	20215900	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:20215900T>G	uc010tkt.1	+	1	314	c.314T>G	c.(313-315)CTC>CGC	p.L105R		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATCTACTTCCTCCACTTTCTA	0.483													6	32					0	0	0.001168	0	0	
OR4K2	390431	broad.mit.edu	37	14	20344817	20344817	+	Missense_Mutation	SNP	C	T	T	rs145217057		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:20344817C>T	uc001vwh.1	+	1	391	c.391C>T	c.(391-393)CAC>TAC	p.H131Y		NM_001005501	NP_001005501	Q8NGD2	OR4K2_HUMAN	olfactory receptor, family 4, subfamily K,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CAAGCCCCTGCACTATGCTTC	0.453													25	119					0	0	0.003330	0	0	
ACIN1	22985	broad.mit.edu	37	14	23530554	23530554	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:23530554C>A	uc001wit.3	-	17	3879	c.3551G>T	c.(3550-3552)CGC>CTC	p.R1184L	ACIN1_uc001wio.3_RNA|ACIN1_uc001wip.3_Missense_Mutation_p.R426L|ACIN1_uc001wiq.3_Missense_Mutation_p.R426L|ACIN1_uc001wir.3_Missense_Mutation_p.R457L|ACIN1_uc001wis.3_Missense_Mutation_p.R865L|ACIN1_uc010akg.2_Missense_Mutation_p.R1171L	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	1184	Arg/Asp/Glu/Lys-rich.				apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		TTCCTTGCGGCGGCGGTCACG	0.567													20	90					0.00229938	0.00236641	0.014323	1	0	
CIDEB	27141	broad.mit.edu	37	14	24775286	24775286	+	Missense_Mutation	SNP	C	T	T	rs147369401		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:24775286C>T	uc001won.2	-	4	518	c.394G>A	c.(394-396)GCC>ACC	p.A132T	CIDEB_uc001woo.2_Missense_Mutation_p.A132T|CIDEB_uc001wop.2_Missense_Mutation_p.A132T|LTB4R2_uc001woq.1_5'Flank	NM_014430	NP_055245	Q9UHD4	CIDEB_HUMAN	cell death-inducing DFFA-like effector b	132				A -> G (in Ref. 1; AAF23324).	apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis	cytosol					0				GBM - Glioblastoma multiforme(265;0.0181)		GTGAATCGGGCGATGTCCTTG	0.527													7	73					0	0	0.001984	0	0	
CTAGE5	4253	broad.mit.edu	37	14	39815175	39815175	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:39815175A>T	uc001wvg.3	+	21	2235	c.1899A>T	c.(1897-1899)AGA>AGT	p.R633S	CTAGE5_uc010tqe.1_Missense_Mutation_p.R595S|CTAGE5_uc001wuz.3_Missense_Mutation_p.R621S|CTAGE5_uc001wuy.3_Missense_Mutation_p.R553S|CTAGE5_uc001wvb.3_Missense_Mutation_p.R561S|CTAGE5_uc001wvc.3_Missense_Mutation_p.R535S|CTAGE5_uc001wva.3_Missense_Mutation_p.R604S|CTAGE5_uc001wvh.3_Missense_Mutation_p.R590S|CTAGE5_uc001wvf.3_Missense_Mutation_p.R558S|CTAGE5_uc001wvi.3_Missense_Mutation_p.R638S|CTAGE5_uc010amz.2_Missense_Mutation_p.R249S|CTAGE5_uc001wvj.3_Missense_Mutation_p.R604S	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	633	Pro-rich.						enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		ATTCTGGTAGACTGTCTGGAC	0.348													18	59					0	0	0.007413	0	0	
C14orf106	55320	broad.mit.edu	37	14	45711523	45711523	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:45711523T>C	uc001wwf.2	-	4	1316	c.857A>G	c.(856-858)GAG>GGG	p.E286G	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	286					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						ACTGAGAGTCTCAGCATTAGT	0.368													15	67					0	0	0.004007	0	0	
SOS2	6655	broad.mit.edu	37	14	50666416	50666416	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:50666416G>A	uc001wxs.3	-	4	601	c.503C>T	c.(502-504)GCG>GTG	p.A168V	SOS2_uc010tql.1_Missense_Mutation_p.A168V	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	168					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TACCTTATCCGCACACATTGA	0.299													8	41					0	0	0.003080	0	0	
PTGDR	5729	broad.mit.edu	37	14	52735102	52735102	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:52735102G>A	uc001wzq.2	+	1	672	c.570G>A	c.(568-570)GAG>GAA	p.E190E		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	190	Extracellular (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding	p.E190K(1)		ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	TGGTCCACGAGGAGGGCTCGC	0.637													8	63					0	0	0.003080	0	0	
PTGER2	5732	broad.mit.edu	37	14	52781549	52781549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:52781549C>T	uc001wzr.2	+	1	534	c.283C>T	c.(283-285)CGG>TGG	p.R95W		NM_000956	NP_000947	P43116	PE2R2_HUMAN	prostaglandin E receptor 2 (subtype EP2), 53kDa	95	Extracellular (Potential).					integral to plasma membrane	prostaglandin E receptor activity			lung(1)|breast(1)	2	Breast(41;0.0639)|all_epithelial(31;0.0729)				Alprostadil(DB00770)|Iloprost(DB01088)	TTCGTACGCGCGGAACCAGAC	0.632													6	40					0	0	0.001168	0	0	
DDHD1	80821	broad.mit.edu	37	14	53539354	53539354	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:53539354C>A	uc001xai.2	-	6	1694	c.1464G>T	c.(1462-1464)ATG>ATT	p.M488I	DDHD1_uc001xaj.2_Missense_Mutation_p.M495I|DDHD1_uc001xah.2_Missense_Mutation_p.M488I|DDHD1_uc001xag.2_Missense_Mutation_p.M70I	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	488					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					ACATTATGTCCATTGCACTGC	0.343													6	34					3.59834e-05	3.81827e-05	0.001168	1	0	
JKAMP	51528	broad.mit.edu	37	14	59954419	59954419	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:59954419G>A	uc001xei.3	+	3	668	c.166G>A	c.(166-168)GCA>ACA	p.A56T	JKAMP_uc001xef.3_Missense_Mutation_p.A42T|JKAMP_uc001xeh.3_Missense_Mutation_p.A36T|JKAMP_uc001xeg.3_Missense_Mutation_p.A50T|JKAMP_uc010try.1_5'UTR|JKAMP_uc001xej.3_5'UTR	NM_001098625	NP_001092095	Q9P055	JKAMP_HUMAN	JNK1-associated membrane protein isoform 2	57	Lumenal (Potential).				ER-associated protein catabolic process|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ubiquitin protein ligase binding			breast(1)	1						GAGAACGAATGCACAGAAATA	0.358													27	144					0	0	0.006320	0	0	
SYNE2	23224	broad.mit.edu	37	14	64632037	64632037	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:64632037G>A	uc001xgm.2	+	90	16744	c.16514G>A	c.(16513-16515)CGG>CAG	p.R5505Q	SYNE2_uc001xgl.2_Missense_Mutation_p.R5505Q|SYNE2_uc010apy.2_Missense_Mutation_p.R1890Q|SYNE2_uc001xgn.2_Missense_Mutation_p.R467Q|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_5'UTR|SYNE2_uc001xgq.2_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5505	Cytoplasmic (Potential).|Potential.				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TTTGGAGTCCGGCTGGAATCT	0.338													11	51					0	0	0.010729	0	0	
GALNTL1	57452	broad.mit.edu	37	14	69798192	69798192	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:69798192C>T	uc010aqu.1	+	7	795	c.702C>T	c.(700-702)CGC>CGT	p.R234R	GALNTL1_uc001xla.1_Silent_p.R234R|GALNTL1_uc001xlb.1_Silent_p.R234R	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	234	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		ACCACACCCGCGTGGTGAGTC	0.562													28	134					0	0	0.010818	0	0	
PCNX	22990	broad.mit.edu	37	14	71514590	71514590	+	Silent	SNP	A	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:71514590A>T	uc001xmo.2	+	22	4673	c.4227A>T	c.(4225-4227)ACA>ACT	p.T1409T	PCNX_uc010are.1_Silent_p.T1298T|PCNX_uc010arf.1_Silent_p.T269T	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1409						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		GCAGCCCTACATATCAGTATG	0.378													17	78					0	0	0.004990	0	0	
C14orf169	79697	broad.mit.edu	37	14	73959112	73959112	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:73959112C>T	uc001xok.1	+	3	1470	c.1391C>T	c.(1390-1392)GCC>GTC	p.A464V	HEATR4_uc010tua.1_Intron	NM_024644	NP_078920	Q9H6W3	NO66_HUMAN	chromosome 14 open reading frame 169	464					negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K4 specific)|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.215)		TACATGGGGGCCCAGCATTCA	0.547													10	40					0	0	0.006214	0	0	
LTBP2	4053	broad.mit.edu	37	14	74969585	74969585	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:74969585G>A	uc001xqa.2	-	34	5328	c.4941C>T	c.(4939-4941)GCC>GCT	p.A1647A		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1647					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		AGTGGACCCCGGCCTCCCGCT	0.627													10	60					0	0	0.008291	0	0	
LTBP2	4053	broad.mit.edu	37	14	74995322	74995322	+	Silent	SNP	G	A	A	rs150924217		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:74995322G>A	uc001xqa.2	-	12	2619	c.2232C>T	c.(2230-2232)GCC>GCT	p.A744A		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	744					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CCTCCTCCTCGGCTTTCCTCA	0.672													8	66					0	0	0.004482	0	0	
KIAA0317	9870	broad.mit.edu	37	14	75130503	75130503	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:75130503T>C	uc001xqb.2	-	20	2897	c.2392A>G	c.(2392-2394)ACA>GCA	p.T798A		NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	798	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		GAGTCATATGTAGGGAGGCAC	0.532													15	99					0	0	0.004990	0	0	
ISM2	145501	broad.mit.edu	37	14	77948722	77948722	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:77948722A>G	uc001xtz.2	-	4	990	c.916T>C	c.(916-918)TGG>CGG	p.W306R	ISM2_uc001xua.2_Intron|ISM2_uc001xty.2_Missense_Mutation_p.W218R|ISM2_uc010tvl.1_Missense_Mutation_p.W225R	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	306						extracellular region				skin(1)	1						CCCTGGTCCCAGTTGTCTGTA	0.393													12	37					0	0	0.013537	0	0	
FLRT2	23768	broad.mit.edu	37	14	86089442	86089442	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:86089442C>T	uc001xvr.2	+	2	2351	c.1584C>T	c.(1582-1584)AGC>AGT	p.S528S	FLRT2_uc010atd.2_Silent_p.S528S	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	528	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CAGCGTCCAGCCATGAGCAGA	0.582													10	94					0	0	0.006214	0	0	
CCDC88C	440193	broad.mit.edu	37	14	91760652	91760652	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:91760652C>T	uc010aty.2	-	23	4076	c.3977G>A	c.(3976-3978)CGT>CAT	p.R1326H		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	1326	Potential.				microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CCCCTTGAGACGGGAGAGCAG	0.363													12	31					0	0	0.010729	0	0	
SLC24A4	123041	broad.mit.edu	37	14	92790234	92790234	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:92790234G>A	uc001yak.2	+	1	33	c.9G>A	c.(7-9)CCG>CCA	p.P3P	SLC24A4_uc001yai.2_Intron|SLC24A4_uc010twm.1_Silent_p.P20P|SLC24A4_uc001yaj.2_Silent_p.P3P	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	20						integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		AGATGCTGCCGCAGCAAGTCG	0.697													4	9					0	0	0.009096	0	0	
SERPINA6	866	broad.mit.edu	37	14	94770841	94770841	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:94770841G>A	uc001ycv.2	-	5	1236	c.1132C>T	c.(1132-1134)CGT>TGT	p.R378C	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	378					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	TGGTTGAAACGCAAGATGATA	0.542													10	42					0	0	0.006214	0	0	
SERPINA6	866	broad.mit.edu	37	14	94772522	94772522	+	Silent	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:94772522G>T	uc001ycv.2	-	4	1022	c.918C>A	c.(916-918)ATC>ATA	p.I306I	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	306					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	AGACTCCAGAGATGGTGACCT	0.567													9	40					0.00621372	0.00637011	0.006214	1	0	
DICER1	23405	broad.mit.edu	37	14	95569709	95569709	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:95569709G>A	uc001ydw.2	-	22	4206	c.4024C>T	c.(4024-4026)CGC>TGC	p.R1342C	DICER1_uc010avh.1_Missense_Mutation_p.R240C|DICER1_uc001ydv.2_Missense_Mutation_p.R1332C|DICER1_uc001ydx.2_Missense_Mutation_p.R1342C|DICER1_uc001ydy.1_Missense_Mutation_p.R194C	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1342	RNase III 1.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		TATGAAAGGCGGCCCTCATGC	0.403			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				16	70					0	0	0.004990	0	0	
AHNAK2	113146	broad.mit.edu	37	14	105407181	105407181	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:105407181C>T	uc010axc.1	-	7	14727	c.14607G>A	c.(14605-14607)AAG>AAA	p.K4869K	AHNAK2_uc001ypx.2_Silent_p.K4769K	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4869						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			AAAACACAAACTTTGGTTTAT	0.478													6	24					0	0	0.001168	0	0	
AHNAK2	113146	broad.mit.edu	37	14	105413931	105413931	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:105413931C>A	uc010axc.1	-	7	7977	c.7857G>T	c.(7855-7857)CAG>CAT	p.Q2619H	AHNAK2_uc001ypx.2_Missense_Mutation_p.Q2519H	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2619						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CTCTCGGGGCCTGGACGTCCA	0.602													44	172					1.52319e-26	1.72519e-26	0.008740	1	0	
MTA1	9112	broad.mit.edu	37	14	105936409	105936409	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:105936409C>T	uc001yqx.2	+	21	2192	c.2005C>T	c.(2005-2007)CGC>TGC	p.R669C	MTA1_uc001yqy.2_RNA|MTA1_uc001yrb.2_Missense_Mutation_p.R434C|CRIP2_uc010tyr.1_5'Flank|CRIP2_uc001yrc.2_5'Flank	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	669					signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		CAGGAAGATCCGCAAGCTGCT	0.716													14	18					0	0	0.004007	0	0	
MTA1	9112	broad.mit.edu	37	14	105936528	105936528	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:105936528C>T	uc001yqx.2	+	21	2311	c.2124C>T	c.(2122-2124)GAC>GAT	p.D708D	MTA1_uc001yqy.2_RNA|MTA1_uc001yrb.2_Silent_p.D473D|CRIP2_uc010tyr.1_5'Flank|CRIP2_uc001yrc.2_5'Flank	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	708					signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		CCGTCAACGACGAGCCCATCG	0.488													3	8					0	0	0.004672	0	0	
C14orf80	283643	broad.mit.edu	37	14	105958492	105958492	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:105958492C>T	uc001yrm.2	+	3	402	c.275C>T	c.(274-276)CCG>CTG	p.P92L	C14orf80_uc001yrj.2_Missense_Mutation_p.P53L|C14orf80_uc001yrk.2_Missense_Mutation_p.P51L|C14orf80_uc001yrn.2_Missense_Mutation_p.P92L|C14orf80_uc001yro.2_Missense_Mutation_p.P92L|C14orf80_uc010tys.1_5'UTR	NM_001134875	NP_001128347	Q86SX3	CN080_HUMAN	hypothetical protein LOC283643 isoform 1	92											0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0188)	Epithelial(152;0.239)		CAGGGCTACCCGAGGCTGGCA	0.642													5	17					0	0	0.000602	0	0	
Unknown	0	broad.mit.edu	37	15	20643871	20643871	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:20643871C>T	uc001ytg.2	-	23	3608	c.2899G>A	c.(2899-2901)GTT>ATT	p.V967I	uc010tyx.1_RNA|uc001yth.3_Missense_Mutation_p.V967I					RecName: Full=Putative HERC2-like protein 3;																		AATGGGCAAACGTGACACGTC	0.483													8	120					0	0	0.008291	0	0	
MTMR15	22909	broad.mit.edu	37	15	31202890	31202890	+	Silent	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:31202890C>A	uc001zff.2	+	4	1740	c.1449C>A	c.(1447-1449)ACC>ACA	p.T483T	MTMR15_uc001zfc.3_Silent_p.T483T|MTMR15_uc010azw.2_Silent_p.T483T|MTMR15_uc001zfd.3_Silent_p.T483T|MTMR15_uc001zfe.2_Silent_p.T88T	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a	483					double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		TAGCCAAGACCTTCCACTTGG	0.433								Direct_reversal_of_damage|Editing_and_processing_nucleases					10	58					1.61879e-10	1.80643e-10	0.013537	1	0	
FMN1	342184	broad.mit.edu	37	15	33194232	33194232	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:33194232A>G	uc001zhf.3	-	9	2718	c.2718T>C	c.(2716-2718)CAT>CAC	p.H906H		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1129	FH2.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		GGGCTAACTCATGTAAAAATC	0.383													8	37					0	0	0.004482	0	0	
RYR3	6263	broad.mit.edu	37	15	34030749	34030749	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:34030749G>A	uc001zhi.2	+	50	7684	c.7614G>A	c.(7612-7614)ACG>ACA	p.T2538T	RYR3_uc010bar.2_Silent_p.T2538T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2538	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGCACCTAACGGAGAAGCTTT	0.478											OREG0023032	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	42					0	0	0.004482	0	0	
LOC723972	723972	broad.mit.edu	37	15	35530067	35530067	+	RNA	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:35530067G>A	uc001ziy.2	+	1		c.541G>A				NR_003144				Homo sapiens hepatopoietin PCn127 mRNA, complete cds.												0						ggagtatgacgaagatgctca	0.224													4	10					0	0	0.009096	0	0	
IVD	3712	broad.mit.edu	37	15	40708280	40708280	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:40708280A>G	uc001zls.3	+	10	1307	c.973A>G	c.(973-975)ATG>GTG	p.M325V	IVD_uc001zlq.2_Missense_Mutation_p.M295V|IVD_uc001zlr.2_Missense_Mutation_p.M28V	NM_002225	NP_002216	P26440	IVD_HUMAN	isovaleryl Coenzyme A dehydrogenase isoform 1	322					leucine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|isovaleryl-CoA dehydrogenase activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;1.52e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0808)		TGCCCAGTTGATGCAGGGGAA	0.532													8	17					0	0	0.003080	0	0	
CASC5	57082	broad.mit.edu	37	15	40912959	40912959	+	Nonsense_Mutation	SNP	T	A	A	rs7169142		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:40912959T>A	uc010bbs.1	+	11	736	c.575T>A	c.(574-576)TTA>TAA	p.L192*	CASC5_uc010ucq.1_Nonsense_Mutation_p.L16*|CASC5_uc001zme.2_Nonsense_Mutation_p.L166*|CASC5_uc010bbt.1_Nonsense_Mutation_p.L166*	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	192	Interaction with BUB1 and BUB1B.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		AAAGGCCTTTTAGATAATCCC	0.373													13	60					0	0	0.001855	0	0	
JMJD7-PLA2G4B	8681	broad.mit.edu	37	15	42138489	42138489	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:42138489G>T	uc010bco.2	+	17	1790	c.1689G>T	c.(1687-1689)TGG>TGT	p.W563C	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.W794C|JMJD7-PLA2G4B_uc010bcn.2_Missense_Mutation_p.W794C|JMJD7-PLA2G4B_uc001zoq.3_Missense_Mutation_p.W264C|JMJD7-PLA2G4B_uc001zor.1_3'UTR	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	563	PLA2c.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						TTCTGACGTGGCGTCCACTGG	0.522													17	78					1.5739e-10	1.75818e-10	0.004007	1	0	
EHD4	30844	broad.mit.edu	37	15	42211660	42211660	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:42211660G>A	uc001zot.2	-	4	735	c.672C>T	c.(670-672)GCC>GCT	p.A224A		NM_139265	NP_644670	Q9H223	EHD4_HUMAN	EH-domain containing 4	224					endocytic recycling|protein homooligomerization	early endosome membrane|endoplasmic reticulum|nucleus|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			ovary(2)	2		all_cancers(109;2.54e-12)|all_epithelial(112;6.59e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		OV - Ovarian serous cystadenocarcinoma(18;1.6e-19)|GBM - Glioblastoma multiforme(94;3.77e-06)|COAD - Colon adenocarcinoma(120;0.0474)|Colorectal(105;0.0538)		CCACTTGGTCGGCCTTGTTCA	0.582													6	43					0	0	0.001168	0	0	
ZFP106	64397	broad.mit.edu	37	15	42743852	42743852	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:42743852A>G	uc001zpw.2	-	2	884	c.549T>C	c.(547-549)GGT>GGC	p.G183G	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_5'UTR|ZFP106_uc001zpy.1_Silent_p.G206G	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	183						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		AAAGCCAACCACCTCCAGAAT	0.488													14	80					0	0	0.001855	0	0	
MAP1A	4130	broad.mit.edu	37	15	43820988	43820988	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:43820988T>C	uc001zrt.2	+	4	7784	c.7317T>C	c.(7315-7317)ACT>ACC	p.T2439T		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2439						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	GATGTGCCACTGAGCCTCGGC	0.652													14	36					0	0	0.004990	0	0	
TMOD3	29766	broad.mit.edu	37	15	52161500	52161500	+	Silent	SNP	A	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:52161500A>T	uc002abm.2	+	3	432	c.213A>T	c.(211-213)TCA>TCT	p.S71S		NM_014547	NP_055362	Q9NYL9	TMOD3_HUMAN	tropomodulin 3 (ubiquitous)	71						cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(1)	1				all cancers(107;0.00194)		ATCTCCTTTCATATCTGGAGA	0.453													12	86					0	0	0.003163	0	0	
ONECUT1	3175	broad.mit.edu	37	15	53049924	53049924	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:53049924C>T	uc002aci.1	-	2	1354	c.1226G>A	c.(1225-1227)CGT>CAT	p.R409H		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	409	Homeobox.				endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		TTTGGATGGACGCTTATTTTC	0.483													20	117					0	0	0.007413	0	0	
ONECUT1	3175	broad.mit.edu	37	15	53049957	53049957	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:53049957C>T	uc002aci.1	-	2	1321	c.1193G>A	c.(1192-1194)CGA>CAA	p.R398Q		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	398	Homeobox.				endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		ATGTAGAGTTCGACGCTGGAC	0.463													21	141					0	0	0.014323	0	0	
PRTG	283659	broad.mit.edu	37	15	55912281	55912281	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:55912281G>A	uc002adg.2	-	20	3430	c.3382C>T	c.(3382-3384)CGG>TGG	p.R1128W		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	1128					multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		TGAGAAAACCGCCCAGAATCC	0.493													12	55					0	0	0.010729	0	0	
FOXB1	27023	broad.mit.edu	37	15	60297516	60297516	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:60297516G>A	uc002agj.1	+	2	833	c.354G>A	c.(352-354)GCG>GCA	p.A118A	FOXB1_uc010bgh.1_Intron	NM_012182	NP_036314	Q99853	FOXB1_HUMAN	forkhead box B1	118					axon target recognition|cell migration in diencephalon|epithelial cell differentiation involved in mammary gland alveolus development|floor plate development|hypothalamus cell migration|inferior colliculus development|lactation|mammillothalamic axonal tract development|negative regulation of neuron apoptosis|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|telencephalon cell migration|visual learning	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|central_nervous_system(1)	2						ACCACCTGGCGCCCAGCAAGC	0.697													5	18					0	0	0.000602	0	0	
ANXA2	302	broad.mit.edu	37	15	60641281	60641281	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:60641281T>A	uc002agn.2	-	13	1113	c.953A>T	c.(952-954)TAT>TTT	p.Y318F	ANXA2_uc002agk.2_Missense_Mutation_p.Y318F|ANXA2_uc002agl.2_Missense_Mutation_p.Y318F|ANXA2_uc002agm.2_Missense_Mutation_p.Y336F|ANXA2_uc010uhd.1_RNA	NM_001136015	NP_001129487	P07355	ANXA2_HUMAN	annexin A2 isoform 2	318	Annexin 4.				angiogenesis|positive regulation of vesicle fusion|skeletal system development	basement membrane|melanosome|midbody|soluble fraction	calcium ion binding|calcium-dependent phospholipid binding|cytoskeletal protein binding|phospholipase inhibitor activity			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Tenecteplase(DB00031)	TACCTGGATATAATAGTACAG	0.532													5	42					0	0	0.001984	0	0	
DPP8	54878	broad.mit.edu	37	15	65793059	65793059	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:65793059C>T	uc002aov.2	-	4	2057	c.479G>A	c.(478-480)CGC>CAC	p.R160H	DPP8_uc002aow.2_Missense_Mutation_p.R160H|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.R144H|DPP8_uc002aoy.2_Missense_Mutation_p.R160H|DPP8_uc002aoz.2_Missense_Mutation_p.R144H|DPP8_uc010bhj.2_Missense_Mutation_p.R160H|DPP8_uc002apa.2_Missense_Mutation_p.R57H	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	160					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						TGTTCCAATGCGTTTTCTTTC	0.393													23	133					0	0	0.002780	0	0	
NOX5	79400	broad.mit.edu	37	15	69347808	69347808	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:69347808C>T	uc002ars.1	+	15	2154	c.2134C>T	c.(2134-2136)CGC>TGC	p.R712C	NOX5_uc002arp.1_Missense_Mutation_p.R694C|NOX5_uc002arq.1_Missense_Mutation_p.R666C|NOX5_uc010bid.1_Missense_Mutation_p.R677C|NOX5_uc002arr.1_Missense_Mutation_p.R684C|NOX5_uc010bie.1_Missense_Mutation_p.R512C|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	712	Extracellular (Potential).				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						GCTGCAGACGCGCACCCAGCC	0.607													5	35					0	0	0.001984	0	0	
LOXL1	4016	broad.mit.edu	37	15	74219771	74219771	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:74219771C>G	uc002awc.1	+	1	983	c.647C>G	c.(646-648)GCG>GGG	p.A216G	uc002awa.1_Intron|uc002awb.1_Intron	NM_005576	NP_005567	Q08397	LOXL1_HUMAN	lysyl oxidase-like 1 preproprotein	216					protein deamination	extracellular space	copper ion binding				0						ggcgcgggggcggcggccgtg	0.473													4	1					0	0	0.009096	0	0	
SEMA7A	8482	broad.mit.edu	37	15	74702973	74702973	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:74702973C>A	uc002axv.2	-	14	2033	c.1993G>T	c.(1993-1995)GTC>TTC	p.V665F	SEMA7A_uc010ulk.1_Missense_Mutation_p.V500F|SEMA7A_uc010ull.1_Missense_Mutation_p.V651F	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	665					axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						CCCTAGTGGACCAGCAAGCCA	0.677													12	63					3.07112e-06	3.30184e-06	0.010729	1	0	
C15orf37	283687	broad.mit.edu	37	15	80215370	80215370	+	Silent	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:80215370C>A	uc002bfb.2	+	1	258	c.255C>A	c.(253-255)GCC>GCA	p.A85A	ST20_uc002bfa.3_Intron	NM_175898	NP_787094			RecName: Full=Putative uncharacterized protein C15orf37;												0						GAGTACCCGCCGAGAGCGGAC	0.537													6	17					3.59834e-05	3.81827e-05	0.001168	1	0	
KIAA1199	57214	broad.mit.edu	37	15	81229194	81229194	+	Silent	SNP	C	T	T	rs79713495	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:81229194C>T	uc002bfw.1	+	23	3449	c.3189C>T	c.(3187-3189)GCC>GCT	p.A1063A	KIAA1199_uc010unn.1_Silent_p.A1063A	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	1063										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CGGCCCCCGCCGAACTCGCCA	0.582													7	58					0	0	0.004482	0	0	
ADAMTSL3	57188	broad.mit.edu	37	15	84651707	84651707	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:84651707C>T	uc002bjz.3	+	21	3551	c.3327C>T	c.(3325-3327)ACC>ACT	p.T1109T	ADAMTSL3_uc010bmt.1_Silent_p.T1109T|ADAMTSL3_uc010bmu.1_Silent_p.T1109T	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	1109						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			TCATGGAAACCGGAGAGGTCA	0.498													7	55					0	0	0.004482	0	0	
POLG	5428	broad.mit.edu	37	15	89864210	89864210	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:89864210C>T	uc002bns.3	-	18	3050	c.2768G>A	c.(2767-2769)GGC>GAC	p.G923D	POLG_uc002bnr.3_Missense_Mutation_p.G923D	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	923			G -> D (in PEOA1).		base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			GCTCTTCCTGCCCTGCAGTGT	0.527								DNA_polymerases_(catalytic_subunits)					13	71					0	0	0.013537	0	0	
FES	2242	broad.mit.edu	37	15	91432867	91432867	+	Splice_Site	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr15:91432867G>A	uc002bpv.2	+	7	1022	c.926_splice	c.e7+1	p.T309_splice	FES_uc010uqj.1_Splice_Site_p.T251_splice|FES_uc010uqk.1_Splice_Site_p.T291_splice|FES_uc002bpw.2_Splice_Site|FES_uc010bny.2_Splice_Site_p.T251_splice|FES_uc002bpx.2_Splice_Site_p.T309_splice|FES_uc002bpy.2_Splice_Site_p.T251_splice	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1						axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			TGCAGCACACGTGGGTGGTGG	0.622													23	78					0	0	0.012319	0	0	
Unknown	0	broad.mit.edu	37	16	66940	66940	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:66940G>A	uc002cfg.1	-	5	1355	c.696C>T	c.(694-696)AGC>AGT	p.S232S		NM_182905	NP_878908			WAS protein family homolog 1																		GCTCTCTCTTGCTGATGGACA	0.597													3	20					0	0	0.004672	0	0	
ARHGDIG	398	broad.mit.edu	37	16	332056	332056	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:332056G>A	uc002cgm.1	+	3	360	c.285G>A	c.(283-285)AGG>AGA	p.R95R	PDIA2_uc002cgn.1_5'UTR|PDIA2_uc010bqt.1_5'Flank|PDIA2_uc002cgo.1_5'Flank	NM_001176	NP_001167	Q99819	GDIR3_HUMAN	Rho GDP dissociation inhibitor (GDI) gamma	95					negative regulation of cell adhesion|regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytoplasmic membrane-bounded vesicle|cytosol	GTPase activator activity|Rho GDP-dissociation inhibitor activity			central_nervous_system(1)	1		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				AGGTGACCAGGCTGACACTCC	0.642													8	73					0	0	0.004482	0	0	
WFIKKN1	117166	broad.mit.edu	37	16	682785	682785	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:682785C>T	uc002cht.1	+	2	617	c.375C>T	c.(373-375)AGC>AGT	p.S125S	WFIKKN1_uc002chs.1_3'UTR	NM_053284	NP_444514	Q96NZ8	WFKN1_HUMAN	WAP, follistatin/kazal, immunoglobulin, kunitz	125	Kazal-like.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity				0		Hepatocellular(780;0.00335)				AGGAGCCCAGCTTCACCTGCG	0.682													4	27					0	0	0.000602	0	0	
CACNA1H	8912	broad.mit.edu	37	16	1257285	1257285	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:1257285A>G	uc002cks.2	+	14	3166	c.2918A>G	c.(2917-2919)CAG>CGG	p.Q973R	CACNA1H_uc002ckt.2_Missense_Mutation_p.Q973R|CACNA1H_uc002cku.2_5'Flank|CACNA1H_uc010brj.2_5'Flank|CACNA1H_uc002ckv.2_5'Flank	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	973	II.|Extracellular (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	ATCCTGACCCAGGAGGACTGG	0.642													5	13					0	0	0.000602	0	0	
IFT140	9742	broad.mit.edu	37	16	1616233	1616233	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:1616233G>A	uc002cmb.2	-	16	2192	c.1830C>T	c.(1828-1830)ACC>ACT	p.T610T	IFT140_uc002clz.2_Silent_p.T261T	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	610										ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				AGTCAAAGACGGTCACTGTGT	0.448													30	115					0	0	0.007291	0	0	
IGFALS	3483	broad.mit.edu	37	16	1841073	1841073	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:1841073A>G	uc002cmy.2	-	2	1427	c.1346T>C	c.(1345-1347)CTG>CCG	p.L449P	IGFALS_uc010uvn.1_Missense_Mutation_p.L487P|IGFALS_uc010uvo.1_Missense_Mutation_p.L83P	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	449	LRR 16.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						GCGGTGGGGCAGGTGCGTGAG	0.692													10	15					0	0	0.006214	0	0	
NTHL1	4913	broad.mit.edu	37	16	2090230	2090230	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:2090230G>A	uc002col.1	-	5	738	c.719C>T	c.(718-720)ACG>ATG	p.T240M	NTHL1_uc002com.1_Missense_Mutation_p.T241M	NM_002528	NP_002519	P78549	NTHL1_HUMAN	nth endonuclease III-like 1	240					depyrimidination|nucleotide-excision repair, DNA incision, 5'-to lesion	nucleoplasm	4 iron, 4 sulfur cluster binding|double-stranded DNA binding|endonuclease activity|metal ion binding|oxidized pyrimidine base lesion DNA N-glycosylase activity|protein binding			lung(1)	1						GTGCACATGCGTGTCCACTGC	0.667								BER_DNA_glycosylases					7	100					0	0	0.001984	0	0	
TSC2	7249	broad.mit.edu	37	16	2124276	2124276	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:2124276T>C	uc002con.2	+	22	2537	c.2431T>C	c.(2431-2433)TGC>CGC	p.C811R	TSC2_uc010bsd.2_Missense_Mutation_p.C811R|TSC2_uc002coo.2_Missense_Mutation_p.C811R|TSC2_uc010uvv.1_Missense_Mutation_p.C774R|TSC2_uc010uvw.1_Missense_Mutation_p.C762R|TSC2_uc002cop.2_Missense_Mutation_p.C611R	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	811					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				CTTGTCCATCTGCAGCGTGGA	0.622			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				8	35					0	0	0.004482	0	0	
PKD1	5310	broad.mit.edu	37	16	2159842	2159842	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:2159842G>T	uc002cos.1	-	15	5535	c.5326C>A	c.(5326-5328)CTG>ATG	p.L1776M	PKD1_uc002cot.1_Missense_Mutation_p.L1776M	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1776	PKD 13.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						ACCAAGTGCAGGCCGGGTGTG	0.632													4	27					5.9392e-07	6.44428e-07	0.001168	1	0	
PKD1	5310	broad.mit.edu	37	16	2162823	2162823	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:2162823C>T	uc002cos.1	-	13	3336	c.3127G>A	c.(3127-3129)GTG>ATG	p.V1043M	PKD1_uc002cot.1_Missense_Mutation_p.V1043M	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1043	PKD 5.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						TCCACCAGCACGCCCGCCGTC	0.672													6	32					0	0	0.001168	0	0	
E4F1	1877	broad.mit.edu	37	16	2285285	2285285	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:2285285C>T	uc002cpm.2	+	14	2115	c.2067C>T	c.(2065-2067)ATC>ATT	p.I689I	E4F1_uc010bsi.2_3'UTR|E4F1_uc010bsj.2_Silent_p.I512I|DNASE1L2_uc002cpn.2_5'Flank|DNASE1L2_uc002cpo.2_5'Flank|DNASE1L2_uc002cpp.2_5'Flank|DNASE1L2_uc002cpq.2_5'Flank	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	689					cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						ACCAGATCATCGTGCAGAACG	0.662													13	59					0	0	0.003163	0	0	
ZNF205	7755	broad.mit.edu	37	16	3170202	3170202	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:3170202G>A	uc002cub.2	+	7	1676	c.1541G>A	c.(1540-1542)AGC>AAC	p.S514N	ZNF205_uc002cua.2_Missense_Mutation_p.S514N	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	514	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						AAGAGCTTCAGCCGGCGCTCC	0.617													12	30					0	0	0.013537	0	0	
TRAP1	10131	broad.mit.edu	37	16	3740886	3740886	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:3740886G>A	uc002cvt.3	-	2	278	c.189C>T	c.(187-189)ACC>ACT	p.T63T	TRAP1_uc010uxf.1_Intron	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	63					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				TGTCCTCGGCGGTCTGCGTGC	0.597											OREG0023572	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	45					0	0	0.008291	0	0	
CREBBP	1387	broad.mit.edu	37	16	3790494	3790494	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:3790494G>A	uc002cvv.2	-	24	4243	c.4039C>T	c.(4039-4041)CGG>TGG	p.R1347W	CREBBP_uc002cvw.2_Missense_Mutation_p.R1309W	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1347	Cys/His-rich.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TTCTGGCGCCGCAAAAATTTG	0.562			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				9	53					0	0	0.004482	0	0	
CREBBP	1387	broad.mit.edu	37	16	3823777	3823777	+	Missense_Mutation	SNP	G	A	A	rs150767375		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:3823777G>A	uc002cvv.2	-	13	2642	c.2438C>T	c.(2437-2439)CCG>CTG	p.P813L	CREBBP_uc002cvw.2_Missense_Mutation_p.P775L	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	813					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TTGGGCTGGCGGCTGCCCCAT	0.552			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				11	40					0	0	0.008291	0	0	
MKL2	57496	broad.mit.edu	37	16	14341277	14341277	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:14341277G>A	uc010uza.1	+	12	2315	c.2160G>A	c.(2158-2160)ACG>ACA	p.T720T	MKL2_uc002dcg.2_Intron|MKL2_uc002dcj.2_5'UTR	NM_014048	NP_054767	Q9ULH7	MKL2_HUMAN	megakaryoblastic leukemia 2 protein	709	Gln-rich.				cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5						TACTGACCACGCAGACTGCTC	0.587													5	18					0	0	0.000602	0	0	
NOMO1	23420	broad.mit.edu	37	16	14932348	14932348	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:14932348G>T	uc002dcv.2	+	2	316	c.250G>T	c.(250-252)GAT>TAT	p.D84Y		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	84	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						CCCTTTGTATGATAAGGTAAG	0.443													25	124					1.39806e-14	1.5717e-14	0.008361	1	0	
C16orf88	400506	broad.mit.edu	37	16	19725713	19725713	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:19725713T>C	uc002dgq.2	-	2	660	c.645A>G	c.(643-645)AAA>AAG	p.K215K	IQCK_uc002dgr.2_5'Flank|IQCK_uc002dgs.2_5'Flank	NM_001012991	NP_001013009	Q1ED39	CP088_HUMAN	hypothetical protein LOC400506	215	Lys-rich.					nucleolus					0						GGATTTTTTTTTTCTTCTTCA	0.537													13	59					0	0	0.001855	0	0	
ACSM2B	348158	broad.mit.edu	37	16	20548586	20548586	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:20548586C>T	uc002dhj.3	-	15	1938	c.1728G>A	c.(1726-1728)GCG>GCA	p.A576A	ACSM2B_uc002dhk.3_Silent_p.A576A	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	576					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						CGCCTCACTGCGCACGGGCTT	0.458													27	148					0	0	0.004656	0	0	
CRYM	1428	broad.mit.edu	37	16	21278978	21278978	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:21278978C>T	uc002dik.2	-	5	655	c.570G>A	c.(568-570)TCG>TCA	p.S190S	CRYM_uc010bwq.1_RNA|CRYM_uc002dil.2_Silent_p.S148S|CRYM_uc002dim.2_Silent_p.S190S	NM_001888	NP_001879	Q14894	CRYM_HUMAN	crystallin, mu isoform 1	190					negative regulation of transcription from RNA polymerase II promoter|sensory perception of sound|thyroid hormone transport	cytoplasm|nucleus|plasma membrane	NADP binding|protein homodimerization activity|thyroid hormone binding|transcription corepressor activity				0				GBM - Glioblastoma multiforme(48;0.0573)	Levothyroxine(DB00451)	CCTCCTGGACCGAAGAACAGA	0.512													6	51					0	0	0.001984	0	0	
GGA2	23062	broad.mit.edu	37	16	23505687	23505687	+	Silent	SNP	C	T	T	rs150275766	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:23505687C>T	uc002dlq.2	-	3	265	c.189G>A	c.(187-189)GCG>GCA	p.A63A	GGA2_uc010bxo.1_RNA	NM_015044	NP_055859	Q9UJY4	GGA2_HUMAN	ADP-ribosylation factor binding protein 2	63	VHS.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|clathrin-coated vesicle|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.0386)		GTAGCCAGGGCGCATGTGTGG	0.502													6	33					0	0	0.001168	0	0	
EARS2	124454	broad.mit.edu	37	16	23544081	23544081	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:23544081G>T	uc002dlt.3	-	5	996	c.964C>A	c.(964-966)CAA>AAA	p.Q322K	EARS2_uc002dlr.3_RNA|EARS2_uc002dls.3_RNA|EARS2_uc002dlu.2_Missense_Mutation_p.Q322K	NM_001083614	NP_001077083	Q5JPH6	SYEM_HUMAN	glutamyl-tRNA synthetase 2 precursor	322					glutamyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|glutamate-tRNA ligase activity|RNA binding				0				GBM - Glioblastoma multiforme(48;0.0353)	L-Glutamic Acid(DB00142)	CTGCCCATTTGGTTCTCTGCA	0.453													3	21					0.004672	0.00479423	0.004672	1	0	
ARHGAP17	55114	broad.mit.edu	37	16	24950837	24950837	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:24950837C>T	uc002dnb.2	-	17	1665	c.1572G>A	c.(1570-1572)CAG>CAA	p.Q524Q	ARHGAP17_uc002dmy.2_5'Flank|ARHGAP17_uc002dmz.2_Silent_p.Q48Q|ARHGAP17_uc002dna.2_Silent_p.Q251Q|ARHGAP17_uc002dnc.2_Intron|ARHGAP17_uc010vcf.1_Intron	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	524	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		GAAGTGGCGGCTGGAAAGCGG	0.612													3	8					0	0	0.004672	0	0	
GTF3C1	2975	broad.mit.edu	37	16	27497443	27497443	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:27497443G>A	uc002dov.1	-	24	3773	c.3733C>T	c.(3733-3735)CGC>TGC	p.R1245C	GTF3C1_uc002dou.2_Missense_Mutation_p.R1245C	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1245						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TCATGGTAGCGCAGCCTTTTG	0.562													31	161					0	0	0.010818	0	0	
ZNF48	197407	broad.mit.edu	37	16	30410362	30410362	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:30410362G>A	uc002dya.1	+	2	1850	c.1791G>A	c.(1789-1791)ACG>ACA	p.T597T	ZNF48_uc002dxz.1_Silent_p.T474T	NM_152652	NP_689865	Q96MX3	ZNF48_HUMAN	zinc finger protein 48	597					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGGTCCTGACGCCCTTTGGGA	0.622													13	60					0	0	0.004007	0	0	
C16orf93	90835	broad.mit.edu	37	16	30768881	30768881	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:30768881G>A	uc002dzm.2	-	9	1243	c.912C>T	c.(910-912)AGC>AGT	p.S304S	C16orf93_uc002dzn.2_Silent_p.S369S|C16orf93_uc002dzo.2_Silent_p.S267S	NM_001014979	NP_001014979	A1A4V9	CP093_HUMAN	hypothetical protein LOC90835	304	Potential.										0						GCCTTTCCTCGCTGGCCTTGA	0.592													17	100					0	0	0.004007	0	0	
ZNF629	23361	broad.mit.edu	37	16	30794106	30794106	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:30794106C>T	uc002dzs.1	-	3	1751	c.1543G>A	c.(1543-1545)GTG>ATG	p.V515M		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	515	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			TCGGAGCACACGAACAGGTTC	0.642													6	39					0	0	0.001168	0	0	
SETD1A	9739	broad.mit.edu	37	16	30982826	30982826	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:30982826G>A	uc002ead.1	+	13	3830	c.3144G>A	c.(3142-3144)TCG>TCA	p.S1048S		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1048	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						cctcctcctcgtcctcatcct	0.418													11	50					0	0	0.008291	0	0	
ZNF423	23090	broad.mit.edu	37	16	49764857	49764857	+	Silent	SNP	G	A	A	rs139517505		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:49764857G>A	uc002efs.2	-	4	400	c.102C>T	c.(100-102)TGC>TGT	p.C34C		NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	34					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				TTTTCTGATCGCACTCTGGCT	0.493													26	137					0	0	0.003954	0	0	
CYLD	1540	broad.mit.edu	37	16	50813710	50813710	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:50813710A>G	uc002egp.1	+	9	1688	c.1273A>G	c.(1273-1275)AAG>GAG	p.K425E	CYLD_uc002ego.2_Missense_Mutation_p.K422E|CYLD_uc010cbs.1_Missense_Mutation_p.K422E|CYLD_uc002egq.1_Missense_Mutation_p.K422E|CYLD_uc002egr.1_Missense_Mutation_p.K422E|CYLD_uc002egs.1_Missense_Mutation_p.K422E	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	425	Interaction with TRAF2.|Interaction with TRIP.				cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				CAGTCTCACCAAGATGCCCAA	0.498			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				31	121					0	0	0.008361	0	0	
CHD9	80205	broad.mit.edu	37	16	53276823	53276823	+	Nonsense_Mutation	SNP	T	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:53276823T>A	uc002ehb.2	+	12	3113	c.2949T>A	c.(2947-2949)TGT>TGA	p.C983*	CHD9_uc002egy.2_Nonsense_Mutation_p.C983*|CHD9_uc002eha.1_Nonsense_Mutation_p.C983*|CHD9_uc002ehc.2_Nonsense_Mutation_p.C983*|CHD9_uc002ehf.2_Nonsense_Mutation_p.C97*|CHD9_uc002ehd.2_Nonsense_Mutation_p.C509*|CHD9_uc002ehe.1_Nonsense_Mutation_p.C97*	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	983	Helicase ATP-binding.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				TTGGAGGCTGTGGAGAGCTTA	0.368													23	114					0	0	0.003330	0	0	
NUDT21	11051	broad.mit.edu	37	16	56485037	56485037	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:56485037C>T	uc002eja.2	-	1	225	c.78G>A	c.(76-78)CAG>CAA	p.Q26Q	OGFOD1_uc002ejb.2_5'Flank|OGFOD1_uc002ejc.2_5'Flank	NM_007006	NP_008937	O43809	CPSF5_HUMAN	cleavage and polyadenylation specific factor 5	26	Necessary for RNA-binding.				mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|protein tetramerization|termination of RNA polymerase II transcription	centrosome|mRNA cleavage factor complex|paraspeckles	AU-rich element binding|histone deacetylase binding|hydrolase activity|mRNA binding|protein homodimerization activity				0						GCTTCGTCTGCTGGATGTACT	0.637													18	92					0	0	0.010504	0	0	
NUP93	9688	broad.mit.edu	37	16	56864565	56864565	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:56864565G>A	uc002eka.2	+	10	1174	c.1053G>A	c.(1051-1053)TGG>TGA	p.W351*	NUP93_uc002ekb.2_Nonsense_Mutation_p.W228*|NUP93_uc010vhi.1_Nonsense_Mutation_p.W228*	NM_014669	NP_055484	Q8N1F7	NUP93_HUMAN	nucleoporin 93kDa	351					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(1)|lung(1)	2						TTAAAACCTGGTTCCAGGAGT	0.532													13	55					0	0	0.013537	0	0	
SLC12A3	6559	broad.mit.edu	37	16	56906652	56906652	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:56906652C>T	uc010ccm.2	+	8	1078	c.1049C>T	c.(1048-1050)TCG>TTG	p.S350L	SLC12A3_uc002ekd.3_Missense_Mutation_p.S350L|SLC12A3_uc010ccn.2_Missense_Mutation_p.S349L	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	350	Helical; (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	TTCTTCCCCTCGGCCACAGGC	0.572													11	47					0	0	0.013537	0	0	
CCL22	6367	broad.mit.edu	37	16	57394460	57394460	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:57394460G>T	uc002elh.2	+	2	196	c.185G>T	c.(184-186)AGG>ATG	p.R62M		NM_002990	NP_002981	O00626	CCL22_HUMAN	small inducible cytokine A22 precursor	62					cell-cell signaling|chemotaxis|immune response|inflammatory response|response to virus|signal transduction	extracellular space	chemokine activity				0						TCCTGCCCGAGGCCTGGCGTG	0.647													13	36					3.27435e-08	3.58587e-08	0.002450	1	0	
KATNB1	10300	broad.mit.edu	37	16	57789377	57789377	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:57789377C>T	uc002eml.1	+	16	1911	c.1537C>T	c.(1537-1539)CGG>TGG	p.R513W		NM_005886	NP_005877	Q9BVA0	KTNB1_HUMAN	katanin p80 subunit B 1	513	Interaction with KATNA1 and NDEL1 (By similarity).				cell division|mitosis|negative regulation of microtubule depolymerization|positive regulation of microtubule depolymerization|protein targeting	katanin complex|microtubule|spindle pole	microtubule binding|protein heterodimerization activity				0		all_neural(199;0.223)				GGACACTGTGCGGGCTGTGTG	0.657													8	60					0	0	0.004482	0	0	
TEPP	374739	broad.mit.edu	37	16	58019155	58019155	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:58019155T>C	uc002emw.3	+	5	708	c.671T>C	c.(670-672)GTG>GCG	p.V224A	TEPP_uc002emv.3_Missense_Mutation_p.V224A	NM_199456	NP_955535	Q6URK8	TEPP_HUMAN	testis/prostate/placenta-expressed protein	224						extracellular region				kidney(1)|central_nervous_system(1)|skin(1)	3						AAGCCCGACGTGACCCAGACC	0.716													3	15					0	0	0.004672	0	0	
FBXL8	55336	broad.mit.edu	37	16	67197644	67197644	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:67197644C>T	uc002erj.1	+	3	1166	c.1046C>T	c.(1045-1047)GCG>GTG	p.A349V	FBXL8_uc002erk.1_Missense_Mutation_p.A349V|HSF4_uc002erl.1_5'UTR|HSF4_uc002erm.1_5'UTR|HSF4_uc002ern.1_5'Flank|HSF4_uc010cec.1_5'Flank	NM_018378	NP_060848	Q96CD0	FBXL8_HUMAN	F-box and leucine-rich repeat protein 8	349							protein binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0144)|Epithelial(162;0.0338)|all cancers(182;0.185)		GCCTTCCGCGCGCACTGCCCG	0.706													6	21					0	0	0.001984	0	0	
ACD	65057	broad.mit.edu	37	16	67691945	67691945	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:67691945G>A	uc002etq.3	-	10	1745	c.1408C>T	c.(1408-1410)CCG>TCG	p.P470S	ACD_uc002etp.3_Missense_Mutation_p.P467S|ACD_uc002etr.3_Missense_Mutation_p.P467S|ACD_uc010vjt.1_3'UTR|PARD6A_uc002ets.2_5'Flank|PARD6A_uc002ett.2_5'Flank	NM_001082486	NP_001075955	Q96AP0	ACD_HUMAN	adrenocortical dysplasia homolog isoform 1	470					intracellular protein transport|negative regulation of telomere maintenance via telomerase|positive regulation of single-stranded telomeric DNA binding|positive regulation of telomerase activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|telomere assembly	nuclear telomere cap complex|nucleoplasm	DNA binding|DNA polymerase binding			pancreas(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		GGAAAAGGCGGCCGATTCTTG	0.612													7	35					0	0	0.001984	0	0	
C16orf48	84080	broad.mit.edu	37	16	67699037	67699037	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:67699037C>T	uc002etw.1	-	3	598	c.315G>A	c.(313-315)CTG>CTA	p.L105L	C16orf48_uc002etv.1_5'Flank|C16orf48_uc010cem.1_Silent_p.L105L|C16orf86_uc002etx.1_5'Flank|C16orf86_uc002ety.2_5'Flank|C16orf86_uc002etz.2_5'Flank	NM_032140	NP_115516	Q9H0I2	CP048_HUMAN	hypothetical protein LOC84080	105						microtubule cytoskeleton	protein binding				0		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		TGATCCGCCTCAGGTTCTCCT	0.597													28	179					0	0	0.008361	0	0	
C16orf86	388284	broad.mit.edu	37	16	67701280	67701280	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:67701280G>A	uc002ety.2	+	2	341	c.184G>A	c.(184-186)GCA>ACA	p.A62T	C16orf48_uc002etv.1_5'Flank|C16orf48_uc002etw.1_5'Flank|C16orf48_uc010cem.1_5'Flank|C16orf86_uc002etx.1_5'UTR|C16orf86_uc002etz.2_RNA	NM_001012984	NP_001013002	Q6ZW13	CP086_HUMAN	hypothetical protein LOC388284	62											0		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		CCCAGCAGGCGCAGCTTCGGA	0.682													9	17					0	0	0.004482	0	0	
ESRP2	80004	broad.mit.edu	37	16	68265946	68265946	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:68265946C>T	uc010cfa.1	-	10	1276	c.1088G>A	c.(1087-1089)CGG>CAG	p.R363Q	ESRP2_uc002evp.1_RNA|ESRP2_uc002evq.1_Missense_Mutation_p.R353Q	NM_024939	NP_079215	Q9H6T0	ESRP2_HUMAN	RNA binding motif protein 35B	363	RRM 2.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding|nucleotide binding			ovary(1)	1						GGGCAGTCCCCGCAGCCGCAG	0.612													5	30					0	0	0.000602	0	0	
SNTB2	6645	broad.mit.edu	37	16	69334794	69334794	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:69334794G>A	uc002ewu.2	+	7	1610	c.1590G>A	c.(1588-1590)TCG>TCA	p.S530S	SNTB2_uc010cfk.2_5'Flank	NM_006750	NP_006741	Q13425	SNTB2_HUMAN	basic beta 2 syntrophin	530	Calmodulin-binding (By similarity).|SU.					cell junction|dystrophin-associated glycoprotein complex|membrane fraction|microtubule|transport vesicle membrane	actin binding|calmodulin binding|protein binding				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.208)		CGTTTTTATCGGCCAAAGTCA	0.423													11	40					0	0	0.013537	0	0	
PHLPP2	23035	broad.mit.edu	37	16	71689196	71689196	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:71689196C>T	uc002fax.2	-	16	2538	c.2532G>A	c.(2530-2532)CAG>CAA	p.Q844Q	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Silent_p.Q777Q	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	844	PP2C-like.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						TAGTTGACTGCTGTACCTCTT	0.478													7	115					0	0	0.001984	0	0	
AP1G1	164	broad.mit.edu	37	16	71779115	71779115	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:71779115G>A	uc010cgg.2	-	19	2245	c.1931C>T	c.(1930-1932)GCG>GTG	p.A644V	AP1G1_uc002fba.2_Missense_Mutation_p.A647V|AP1G1_uc002fbb.2_Missense_Mutation_p.A667V|AP1G1_uc002faz.2_Missense_Mutation_p.A61V	NM_001128	NP_001119	O43747	AP1G1_HUMAN	adaptor-related protein complex 1, gamma 1	644					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|recycling endosome	kinesin binding|protein transporter activity			ovary(2)	2		Ovarian(137;0.125)				GCTTGTAGGCGCAGTTGGAAT	0.408													10	45					0	0	0.006214	0	0	
ATMIN	23300	broad.mit.edu	37	16	81078429	81078429	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:81078429G>A	uc002ffz.1	+	4	2344	c.2326G>A	c.(2326-2328)GGG>AGG	p.G776R	ATMIN_uc002fga.2_Missense_Mutation_p.G618R|ATMIN_uc010vnn.1_Missense_Mutation_p.G547R|ATMIN_uc002fgb.1_Missense_Mutation_p.G618R	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	776					response to DNA damage stimulus	nucleus	zinc ion binding				0						TGAAACCCTGGGGAGCTTGTT	0.463													24	64					0	0	0.003330	0	0	
CDH13	1012	broad.mit.edu	37	16	83378583	83378583	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:83378583C>T	uc002fgx.2	+	6	873	c.753C>T	c.(751-753)ATC>ATT	p.I251I	CDH13_uc010vns.1_Silent_p.I298I|CDH13_uc010vnt.1_5'UTR|CDH13_uc010vnu.1_Silent_p.I212I	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	251	Cadherin 2.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		GCCCCTACATCGGCCACGTCA	0.507													11	71					0	0	0.013537	0	0	
KLHL36	79786	broad.mit.edu	37	16	84684525	84684525	+	Missense_Mutation	SNP	G	A	A	rs79842977	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:84684525G>A	uc002fig.2	+	2	193	c.52G>A	c.(52-54)GAA>AAA	p.E18K	KLHL36_uc010chl.2_Missense_Mutation_p.E17K	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	18										skin(2)	2						CAAGATCAGCGAATCATCAAA	0.438													9	45					0	0	0.006214	0	0	
FOXF1	2294	broad.mit.edu	37	16	86544715	86544715	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:86544715G>A	uc002fjl.2	+	1	583	c.540G>A	c.(538-540)TCG>TCA	p.S180S	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	180					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						GCGGCCTCTCGTGCCCGCCCA	0.687													4	19					0	0	0.000602	0	0	
SMG6	23293	broad.mit.edu	37	17	2202634	2202634	+	Silent	SNP	C	T	T	rs149206280	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:2202634C>T	uc002fub.1	-	2	1468	c.1413G>A	c.(1411-1413)ACG>ACA	p.T471T	SMG6_uc002fud.1_Silent_p.T440T	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	471	Interaction with telomeric DNA.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						GTAGCTGGGGCGTCTGAGTCT	0.517													29	170					0	0	0.006320	0	0	
ATP2A3	489	broad.mit.edu	37	17	3850715	3850715	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:3850715C>T	uc002fxb.1	-	8	1216	c.1065G>A	c.(1063-1065)ACG>ACA	p.T355T	ATP2A3_uc002fwx.1_Silent_p.T355T|ATP2A3_uc002fwy.1_Silent_p.T355T|ATP2A3_uc002fwz.1_Silent_p.T355T|ATP2A3_uc002fxa.1_Silent_p.T355T|ATP2A3_uc002fxc.1_Silent_p.T355T|ATP2A3_uc002fxd.1_Silent_p.T355T	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	355	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		TGGTGGTGAGCGTGCCCGTCT	0.647													11	35					0	0	0.001855	0	0	
MYBBP1A	10514	broad.mit.edu	37	17	4446270	4446270	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:4446270G>A	uc002fyb.3	-	20	2892	c.2830C>T	c.(2830-2832)CAT>TAT	p.H944Y	MYBBP1A_uc002fxz.3_Missense_Mutation_p.H944Y|MYBBP1A_uc002fya.3_5'Flank|MYBBP1A_uc010vsa.1_5'UTR	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	944					nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						TGTGTCTCATGCACGCAGCCC	0.662													16	89					0	0	0.004990	0	0	
PELP1	27043	broad.mit.edu	37	17	4576294	4576294	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:4576294C>T	uc002fyi.3	-	16	2218	c.1992G>A	c.(1990-1992)CCG>CCA	p.P664P	PELP1_uc010vsf.1_Silent_p.P517P	NM_014389	NP_055204	Q8IZL8	PELP1_HUMAN	proline, glutamic acid and leucine rich protein	664	Pro-rich.				transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			ovary(1)|central_nervous_system(1)	2						GAGGATGGAACGGTGGGGCCC	0.721													5	28					0	0	0.000602	0	0	
ZMYND15	84225	broad.mit.edu	37	17	4647919	4647919	+	Splice_Site	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:4647919G>T	uc002fyt.2	+	10	1606	c.1567_splice	c.e10-1	p.D523_splice	ZMYND15_uc002fyv.2_Splice_Site_p.D562_splice|ZMYND15_uc002fyu.2_Splice_Site_p.D562_splice	NM_032265	NP_115641	Q9H091	ZMY15_HUMAN	zinc finger, MYND-type containing 15 isoform 2								zinc ion binding				0						GGGCCCCTCAGGACAGCCTGG	0.642													22	78					3.28513e-13	3.68143e-13	0.003954	1	0	
CAMTA2	23125	broad.mit.edu	37	17	4875560	4875560	+	Silent	SNP	G	A	A	rs147321617		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:4875560G>A	uc002gah.1	-	16	2883	c.2775C>T	c.(2773-2775)GAC>GAT	p.D925D	CAMTA2_uc010cku.1_Silent_p.D948D|CAMTA2_uc002gag.1_Silent_p.D924D|CAMTA2_uc002gai.1_Silent_p.D927D|CAMTA2_uc010ckv.1_Silent_p.D572D	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	925					cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						GGCTGTCAGCGTCCTCTGGAG	0.577													13	66					0	0	0.002450	0	0	
NUP88	4927	broad.mit.edu	37	17	5314064	5314064	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:5314064T>C	uc002gbo.1	-	4	665	c.639A>G	c.(637-639)ATA>ATG	p.I213M	NUP88_uc010vsx.1_Missense_Mutation_p.I213M|NUP88_uc010cle.1_Missense_Mutation_p.I213M|NUP88_uc010vsy.1_Missense_Mutation_p.I213M	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	213					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						CTTCTGAAAGTATTATCACGT	0.348													12	154					0	0	0.001855	0	0	
C17orf81	23587	broad.mit.edu	37	17	7158035	7158035	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7158035G>A	uc002gfg.1	+	5	477	c.370G>A	c.(370-372)GAT>AAT	p.D124N	DULLARD_uc002gfe.2_5'Flank|DULLARD_uc002gff.2_5'Flank|C17orf81_uc002gfj.2_Missense_Mutation_p.D124N|C17orf81_uc010cmb.2_Missense_Mutation_p.D124N|C17orf81_uc002gfh.1_Missense_Mutation_p.D124N|C17orf81_uc002gfi.1_Missense_Mutation_p.D124N|C17orf81_uc002gfk.1_Missense_Mutation_p.D124N|C17orf81_uc002gfl.1_Missense_Mutation_p.D124N	NM_203415	NP_981960	Q8TE02	DERP6_HUMAN	S-phase 2 protein isoform 4	124					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding				0						CATTGCTCTCGATTCACTCAG	0.582													9	53					0	0	0.008291	0	0	
SLC2A4	6517	broad.mit.edu	37	17	7186563	7186563	+	Splice_Site	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7186563G>T	uc002gfp.2	+	2	234	c.34_splice	c.e2-1	p.D12_splice	SLC2A4_uc002gfo.2_Splice_Site_p.D12_splice|SLC2A4_uc010cmd.2_Splice_Site	NM_001042	NP_001033	P14672	GTR4_HUMAN	glucose transporter 4						carbohydrate metabolic process|glucose homeostasis|glucose import	external side of plasma membrane|integral to plasma membrane|perinuclear region of cytoplasm	D-glucose transmembrane transporter activity|protein binding				0						TGCCTGTTCAGGATGGGGAAC	0.572													27	107					3.80469e-20	4.29549e-20	0.009535	1	0	
NLGN2	57555	broad.mit.edu	37	17	7319189	7319189	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7319189C>T	uc002ggt.1	+	6	1470	c.1397C>T	c.(1396-1398)GCC>GTC	p.A466V		NM_020795	NP_065846	Q8NFZ4	NLGN2_HUMAN	neuroligin 2 precursor	466	Extracellular (Potential).				cell-cell junction maintenance|neuron cell-cell adhesion|positive regulation of synaptogenesis|regulation of inhibitory postsynaptic membrane potential|synapse assembly	cell surface|integral to plasma membrane|postsynaptic membrane	neurexin binding|receptor activity			central_nervous_system(1)	1		Prostate(122;0.157)				CCAGCTGTGGCCACTGCCAAG	0.612													7	39					0	0	0.001984	0	0	
CHRNB1	1140	broad.mit.edu	37	17	7351982	7351982	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7351982G>A	uc002ghb.2	+	7	736	c.695G>A	c.(694-696)CGC>CAC	p.R232H	CHRNB1_uc010vty.1_Missense_Mutation_p.R160H|CHRNB1_uc010vtz.1_Missense_Mutation_p.R66H	NM_000747	NP_000738	P11230	ACHB_HUMAN	nicotinic acetylcholine receptor beta 1 subunit	232	Extracellular (Potential).				behavioral response to nicotine|muscle contraction|muscle fiber development|neuromuscular synaptic transmission|postsynaptic membrane organization|regulation of membrane potential|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine binding|receptor activity			ovary(2)	2		Prostate(122;0.157)				GAAGGACAGCGCCAGGAAGTC	0.562													5	31					0	0	0.000602	0	0	
LSMD1	84316	broad.mit.edu	37	17	7760760	7760760	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7760760T>C	uc002giz.2	-	1	121	c.22A>G	c.(22-24)ATG>GTG	p.M8V	LSMD1_uc002gja.2_5'UTR|CYB5D1_uc010cnn.1_5'Flank|CYB5D1_uc002gjb.3_5'Flank			Q9BRA0	LSMD1_HUMAN	RecName: Full=LSM domain-containing protein 1; AltName: Full=Phosphonoformate immuno-associated protein 2;	8						cytoplasm|nucleus				ovary(1)	1		all_cancers(10;0.11)|Prostate(122;0.219)				CGTAGCAGCATGGTCGGTCCA	0.612													8	50					0	0	0.006214	0	0	
CNTROB	116840	broad.mit.edu	37	17	7852792	7852792	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:7852792G>A	uc002gjq.2	+	20	3595	c.2676G>A	c.(2674-2676)CCG>CCA	p.P892P	CNTROB_uc002gjp.2_Silent_p.P914P|CNTROB_uc002gjr.2_Silent_p.P795P	NM_053051	NP_444279	Q8N137	CNTRB_HUMAN	centrobin, centrosomal BRCA2 interacting protein	892	Required for centrosome localization.				centriole replication|centrosome separation|cytokinesis	centriole	protein domain specific binding			breast(1)|central_nervous_system(1)	2		Prostate(122;0.173)				ACCCTGCCCCGAGTAGCATGA	0.547													9	52					0	0	0.004482	0	0	
ARHGEF15	22899	broad.mit.edu	37	17	8215445	8215445	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:8215445G>A	uc002glc.2	+	2	209	c.88G>A	c.(88-90)GCT>ACT	p.A30T	ARHGEF15_uc002glb.1_Missense_Mutation_p.A30T|ARHGEF15_uc002gld.2_Missense_Mutation_p.A30T|ARHGEF15_uc010vuw.1_Missense_Mutation_p.A30T	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	30	Pro-rich.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						TCGTTCCAGGGCTGCCCAGTC	0.622													12	78					0	0	0.013537	0	0	
PIK3R5	23533	broad.mit.edu	37	17	8790929	8790929	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:8790929C>T	uc002glt.2	-	11	1755	c.1688G>A	c.(1687-1689)CGA>CAA	p.R563Q	PIK3R5_uc010vuz.1_Missense_Mutation_p.R563Q|PIK3R5_uc002glu.3_Missense_Mutation_p.R177Q	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	563					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CCCATGACTTCGCTTCACAGG	0.607													3	9					0	0	0.004672	0	0	
MYH13	8735	broad.mit.edu	37	17	10258072	10258072	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:10258072G>A	uc002gmk.1	-	11	1020	c.930C>T	c.(928-930)TTC>TTT	p.F310F		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	310	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						AGGGGAAGTCGAAGGGGTTGG	0.463													7	39					0	0	0.001984	0	0	
MYH8	4626	broad.mit.edu	37	17	10296236	10296236	+	Missense_Mutation	SNP	G	A	A	rs144962215		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:10296236G>A	uc002gmm.2	-	37	5470	c.5375C>T	c.(5374-5376)ACG>ATG	p.T1792M	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1792	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GTCCTTCACCGTCTGCTCCAG	0.557									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				21	135					0	0	0.010504	0	0	
MYH1	4619	broad.mit.edu	37	17	10404747	10404747	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:10404747G>A	uc002gmo.2	-	27	3512	c.3418C>T	c.(3418-3420)CGC>TGC	p.R1140C	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1140	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						AGATCAGAGCGCTGCTTCTCT	0.587													10	72					0	0	0.008291	0	0	
MYH2	4620	broad.mit.edu	37	17	10441021	10441021	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:10441021G>A	uc010coi.2	-	15	1676	c.1548C>T	c.(1546-1548)TTC>TTT	p.F516F	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.F516F|MYH2_uc010coj.2_Silent_p.F516F	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	516	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GGTCCATCCCGAAGTCGATGA	0.463													26	123					0	0	0.007291	0	0	
DNAH9	1770	broad.mit.edu	37	17	11775053	11775053	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:11775053C>T	uc002gne.2	+	52	10260	c.10192C>T	c.(10192-10194)CGG>TGG	p.R3398W	DNAH9_uc010coo.2_Missense_Mutation_p.R2692W	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3398					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AAAGAAATACCGGCAGAGCCT	0.383													19	89					0	0	0.012319	0	0	
TEKT3	64518	broad.mit.edu	37	17	15212047	15212047	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:15212047T>C	uc002gon.2	-	8	1377	c.1190A>G	c.(1189-1191)CAG>CGG	p.Q397R		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	397					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		CAGTCTGGTCTGAGCCACCTT	0.547													12	69					0	0	0.001855	0	0	
TOM1L2	146691	broad.mit.edu	37	17	17788064	17788064	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:17788064G>A	uc002grz.3	-	5	542	c.385C>T	c.(385-387)CGA>TGA	p.R129*	TOM1L2_uc002gry.3_Nonsense_Mutation_p.R79*|TOM1L2_uc010vwy.1_Nonsense_Mutation_p.R129*|TOM1L2_uc010cpr.2_Intron|TOM1L2_uc010vwz.1_Intron|TOM1L2_uc010vxa.1_Intron|TOM1L2_uc010vxb.1_Nonsense_Mutation_p.R79*	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	129	VHS.				intracellular protein transport	intracellular					0	all_neural(463;0.228)					GGACTGCTTCGAAAGGCATCA	0.512													20	79					0	0	0.010504	0	0	
MYO15A	51168	broad.mit.edu	37	17	18058634	18058634	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:18058634G>A	uc010vxh.1	+	46	8685	c.8347G>A	c.(8347-8349)GTG>ATG	p.V2783M	MYO15A_uc010vxi.1_Missense_Mutation_p.V47M|MYO15A_uc010vxj.1_Translation_Start_Site|MYO15A_uc010vxk.1_Intron|MYO15A_uc010vxl.1_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2783	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCAGGGCAGCGTGGGCACTGG	0.647													10	48					0	0	0.006214	0	0	
CYTSB	92521	broad.mit.edu	37	17	20109123	20109123	+	Silent	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:20109123C>A	uc002gwq.2	+	4	1906	c.1761C>A	c.(1759-1761)GCC>GCA	p.A587A	CYTSB_uc010cqx.2_Silent_p.A587A|CYTSB_uc002gwr.2_Silent_p.A587A|CYTSB_uc002gws.2_Silent_p.A587A|CYTSB_uc002gwv.2_Silent_p.A506A|CYTSB_uc010vzf.1_Intron|CYTSB_uc002gww.2_Silent_p.A363A|CYTSB_uc002gwt.2_Silent_p.A506A|CYTSB_uc002gwu.2_Silent_p.A506A	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	587	Potential.					nucleus					0						TGAAAGTAGCCCGAGCAGAGA	0.473													15	84					1.05317e-09	1.16542e-09	0.002450	1	0	
LGALS9B	284194	broad.mit.edu	37	17	20354904	20354904	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:20354904G>A	uc002gxa.1	-	10	879	c.814C>T	c.(814-816)CGT>TGT	p.R272C	LGALS9B_uc002gwz.1_Missense_Mutation_p.R271C|LGALS9B_uc010vzh.1_Missense_Mutation_p.R184C	NM_001042685	NP_001036150	Q3B8N2	LEG9B_HUMAN	galectin-9 like	272	Galectin 2.						sugar binding			skin(1)	1						TCATCAAAACGGGGGTTCATG	0.572													10	70					0	0	0.013537	0	0	
Unknown	0	broad.mit.edu	37	17	20805631	20805631	+	RNA	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:20805631G>A	uc002gyg.1	+	4		c.815G>A			uc002gyh.1_RNA					Homo sapiens cDNA FLJ32911 fis, clone TESTI2006210.																		AGCCATCAGCGTAGACGACGA	0.557													24	66					0	0	0.003954	0	0	
DHRS7B	25979	broad.mit.edu	37	17	21087756	21087756	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:21087756G>A	uc002gyo.2	+	5	626	c.599G>A	c.(598-600)AGC>AAC	p.S200N		NM_015510	NP_056325	Q6IAN0	DRS7B_HUMAN	dehydrogenase/reductase (SDR family) member 7B	200	Peroxisomal (Potential).					integral to membrane|peroxisomal membrane	binding|oxidoreductase activity			pancreas(1)	1						GGCAAGATGAGCATTCCTTTT	0.448													15	44					0	0	0.004007	0	0	
FAM27L	284123	broad.mit.edu	37	17	21825448	21825448	+	RNA	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:21825448C>T	uc002gyz.2	+	1		c.79C>T				NR_028336				Homo sapiens family with sequence similarity 27-like, mRNA (cDNA clone MGC:35151 IMAGE:5169482), complete cds.												0				UCEC - Uterine corpus endometrioid carcinoma (53;0.11)|BRCA - Breast invasive adenocarcinoma(1;0.00463)		gacttctccacggggtacaca	0													5	22					0	0	0.000602	0	0	
SEZ6	124925	broad.mit.edu	37	17	27287983	27287983	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:27287983C>T	uc002hdp.2	-	6	1443	c.1249G>A	c.(1249-1251)GGC>AGC	p.G417S	SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Missense_Mutation_p.G417S|SEZ6_uc002hdq.1_Missense_Mutation_p.G292S	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	417	Extracellular (Potential).|CUB 1.			AACG -> GECP (in Ref. 1; AAM22213/ AAK71497).|G -> P (in Ref. 1; AAM22213/AAK71497).		integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			ATCACTCCGCCGCAAGCAGCT	0.607													15	74					0	0	0.003163	0	0	
ABHD15	116236	broad.mit.edu	37	17	27889934	27889934	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:27889934G>T	uc002hed.1	-	2	1116	c.1052C>A	c.(1051-1053)CCT>CAT	p.P351H		NM_198147	NP_937790	Q6UXT9	ABH15_HUMAN	abhydrolase domain containing 15 precursor	351						extracellular region	carboxylesterase activity				0						ACACAGCACAGGCACGGCTGC	0.592													10	38					2.74318e-10	3.0515e-10	0.006214	1	0	
SSH2	85464	broad.mit.edu	37	17	27994231	27994231	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:27994231G>A	uc002heo.1	-	9	739	c.739C>T	c.(739-741)CGT>TGT	p.R247C	SSH2_uc010wbh.1_Missense_Mutation_p.R274C|SSH2_uc002hep.1_Missense_Mutation_p.R247C	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	247					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						GTTCGTTCACGTTCAGTAGGT	0.343													5	32					0	0	0.000602	0	0	
GAS2L2	246176	broad.mit.edu	37	17	34077256	34077256	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:34077256C>T	uc002hjv.1	-	2	495	c.467G>A	c.(466-468)CGC>CAC	p.R156H		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	156	CH.				cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCACGCCCGGCGGCCCAGCTC	0.677													32	144					0	0	0.004289	0	0	
ACACA	31	broad.mit.edu	37	17	35478397	35478397	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:35478397C>T	uc002hnm.2	-	50	6234	c.6043G>A	c.(6043-6045)GGC>AGC	p.G2015S	ACACA_uc002hnk.2_Missense_Mutation_p.G1937S|ACACA_uc002hnl.2_Missense_Mutation_p.G1957S|ACACA_uc002hnn.2_Missense_Mutation_p.G2015S|ACACA_uc002hno.2_Missense_Mutation_p.G2052S|ACACA_uc010cuy.2_Missense_Mutation_p.G660S|ACACA_uc010wdb.1_Missense_Mutation_p.G53S|ACACA_uc010wdc.1_Missense_Mutation_p.G141S	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	2015	Carboxyltransferase.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	CAAACCTGGCCAGCCTGCTGG	0.458													15	61					0	0	0.004990	0	0	
ACACA	31	broad.mit.edu	37	17	35614709	35614709	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:35614709G>A	uc002hnm.2	-	14	1822	c.1631C>T	c.(1630-1632)GCT>GTT	p.A544V	ACACA_uc002hnk.2_Missense_Mutation_p.A466V|ACACA_uc002hnl.2_Missense_Mutation_p.A486V|ACACA_uc002hnn.2_Missense_Mutation_p.A544V|ACACA_uc002hno.2_Missense_Mutation_p.A581V|ACACA_uc010cuz.2_Missense_Mutation_p.A544V	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	544	Biotin carboxylation.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	CCCTGCAGCAGCAACACTGAA	0.418													9	54					0	0	0.004482	0	0	
PNMT	5409	broad.mit.edu	37	17	37826401	37826401	+	Missense_Mutation	SNP	C	T	T	rs111272760		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:37826401C>T	uc002hsi.1	+	3	830	c.608C>T	c.(607-609)ACG>ATG	p.T203M		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	203					catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	all_cancers(6;6.59e-85)|all_epithelial(6;2.89e-103)|Breast(7;1.05e-86)|Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;3.87e-45)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CACATCACCACGCTGCTGAGG	0.672													8	22					0	0	0.006214	0	0	
MED24	9862	broad.mit.edu	37	17	38183270	38183270	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:38183270C>T	uc002htt.2	-	17	1861	c.1548G>A	c.(1546-1548)TCG>TCA	p.S516S	MED24_uc010wes.1_Silent_p.S376S|MED24_uc010wet.1_Intron|MED24_uc002hts.2_Silent_p.S541S|MED24_uc002htu.2_Silent_p.S503S|MED24_uc010cwn.2_Silent_p.S503S|MED24_uc010weu.1_Silent_p.S426S|MED24_uc010wev.1_Silent_p.S466S|MED24_uc010wew.1_Silent_p.S457S|MED24_uc010wex.1_Silent_p.S221S|SNORD124_uc010wey.1_5'Flank	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	516					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					CTCCTGTGCGCGACTCGGACA	0.672											OREG0024386	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	23					0	0	0.001168	0	0	
KRT16	3868	broad.mit.edu	37	17	39767342	39767342	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:39767342A>G	uc002hxg.3	-	4	1051	c.912T>C	c.(910-912)GCT>GCC	p.A304A	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	304	Rod.|Coil 2.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				ACCAGGTCTCAGCGTCTCTGC	0.602													26	138					0	0	0.005443	0	0	
HDAC5	10014	broad.mit.edu	37	17	42165936	42165936	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:42165936G>A	uc002ifd.1	-	12	1629	c.1418C>T	c.(1417-1419)ACG>ATG	p.T473M	HDAC5_uc002ife.1_Missense_Mutation_p.T473M|HDAC5_uc002iff.1_Missense_Mutation_p.T474M|HDAC5_uc010czp.1_Missense_Mutation_p.T473M|HDAC5_uc002ifh.2_Missense_Mutation_p.T473M	NM_005474	NP_005465	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5 isoform 1	473					B cell differentiation|cellular response to insulin stimulus|chromatin remodeling|chromatin silencing|inflammatory response|negative regulation of cell migration involved in sprouting angiogenesis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			ovary(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		ACGTTCACCCGTCACTAGTGG	0.657													4	18					0	0	0.009096	0	0	
GPATCH8	23131	broad.mit.edu	37	17	42513884	42513884	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:42513884T>C	uc002igw.1	-	4	287	c.223A>G	c.(223-225)AAG>GAG	p.K75E	GPATCH8_uc002igv.1_5'UTR|GPATCH8_uc010wiz.1_5'UTR	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	75	G-patch.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		ACATCATACTTGACAACGATT	0.373													6	56					0	0	0.006214	0	0	
FZD2	2535	broad.mit.edu	37	17	42635443	42635443	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:42635443T>C	uc002igx.1	+	1	519	c.387T>C	c.(385-387)GGT>GGC	p.G129G		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	129	FZ.|Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		ACAAGTTCGGTTTTCAGTGGC	0.692													5	62					0	0	0.000602	0	0	
PLCD3	113026	broad.mit.edu	37	17	43196222	43196222	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:43196222G>A	uc002iib.2	-	5	987	c.873C>T	c.(871-873)CGC>CGT	p.R291R		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	291					intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	GCTGCTGGGCGCGGGCCAGTG	0.423													3	22					0	0	0.004672	0	0	
ACBD4	79777	broad.mit.edu	37	17	43221001	43221001	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:43221001G>T	uc010wjj.1	+	12	1488	c.1019G>T	c.(1018-1020)AGG>ATG	p.R340M	ACBD4_uc002iie.2_Missense_Mutation_p.R340M|ACBD4_uc002iif.2_3'UTR|ACBD4_uc002iic.2_3'UTR|ACBD4_uc010dae.2_Missense_Mutation_p.R262M	NM_001135704	NP_001129176	Q8NC06	ACBD4_HUMAN	acyl-Coenzyme A binding domain containing 4	Error:Variant_position_missing_in_Q8NC06_after_alignment							fatty-acyl-CoA binding			ovary(1)|kidney(1)	2						AGCCTTCCTAGGGTTTAGAAG	0.547													8	43					0.000157383	0.000165019	0.003080	1	0	
FMNL1	752	broad.mit.edu	37	17	43321564	43321564	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:43321564G>A	uc002iin.2	+	19	2670	c.2470G>A	c.(2470-2472)GCC>ACC	p.A824T	FMNL1_uc002iiq.2_Missense_Mutation_p.A402T|FMNL1_uc010dag.2_RNA	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	824	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						CATCATTGCAGCCTCAATGTC	0.582													6	11					0	0	0.001168	0	0	
DLX3	1747	broad.mit.edu	37	17	48072218	48072218	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:48072218C>T	uc002ipy.2	-	1	371	c.145G>A	c.(145-147)GAT>AAT	p.D49N		NM_005220	NP_005211	O60479	DLX3_HUMAN	distal-less homeobox 3	49						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GAGTAGTAATCGTGCTGGGGA	0.607													9	60					0	0	0.004482	0	0	
LPO	4025	broad.mit.edu	37	17	56329565	56329565	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:56329565C>T	uc002ivt.2	+	8	1119	c.803C>T	c.(802-804)GCG>GTG	p.A268V	LPO_uc010wns.1_Missense_Mutation_p.A209V|LPO_uc010dcp.2_Missense_Mutation_p.A185V|LPO_uc010dcq.2_Intron|LPO_uc010dcr.2_5'UTR	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	268					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						GACCCCAAGGCGGGGACTCAA	0.607													4	32					0	0	0.009096	0	0	
MTMR4	9110	broad.mit.edu	37	17	56585898	56585898	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:56585898G>A	uc002iwj.2	-	7	592	c.482C>T	c.(481-483)GCG>GTG	p.A161V		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	161	Myotubularin phosphatase.					cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGCAAGCTCCGCCTCCTGTCG	0.542													8	46					0	0	0.004482	0	0	
DHX40	79665	broad.mit.edu	37	17	57676787	57676787	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:57676787A>G	uc002ixn.1	+	14	1896	c.1749A>G	c.(1747-1749)TTA>TTG	p.L583L	DHX40_uc010woe.1_Silent_p.L506L|DHX40_uc010wof.1_Silent_p.L98L	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	583							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					GGAGGTGCTTATTTTCTGCAT	0.383													5	27					0	0	0.004482	0	0	
DHX40	79665	broad.mit.edu	37	17	57679954	57679954	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:57679954C>T	uc002ixn.1	+	15	2025	c.1878C>T	c.(1876-1878)GGC>GGT	p.G626G	DHX40_uc010woe.1_Silent_p.G549G|DHX40_uc010wof.1_Silent_p.G141G	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	626							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TTTGTGCGGGCTATTTCAAAA	0.328													8	44					0	0	0.004482	0	0	
BCAS3	54828	broad.mit.edu	37	17	58786631	58786631	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:58786631C>T	uc002iyv.3	+	5	375	c.266C>T	c.(265-267)CCG>CTG	p.P89L	BCAS3_uc010wow.1_Intron|BCAS3_uc002iyu.3_Missense_Mutation_p.P89L|BCAS3_uc002iyw.3_Missense_Mutation_p.P85L	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	89	WD 1.					nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			GGGAATGAACCGCCTTTGTTG	0.368													5	51					0	0	0.000602	0	0	
ACE	1636	broad.mit.edu	37	17	61573866	61573866	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:61573866G>A	uc002jau.1	+	23	3514	c.3492G>A	c.(3490-3492)GGG>GGA	p.G1164G	ACE_uc002jav.1_Silent_p.G590G|ACE_uc010ddv.1_Silent_p.G391G|ACE_uc010wpj.1_Intron|ACE_uc002jaw.1_RNA|ACE_uc010wpk.1_Intron	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	1164	Extracellular (Potential).|Peptidase M2 2.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	AGGAGGCCGGGCAGCGCCTGG	0.627													17	67					0	0	0.004007	0	0	
PLEKHM1P	440456	broad.mit.edu	37	17	62788490	62788490	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:62788490G>A	uc002jew.3	-	8	2150	c.1239C>T	c.(1237-1239)GGC>GGT	p.G413G	PLEKHM1P_uc002jev.3_RNA	NR_024386				RecName: Full=Putative pleckstrin homology domain-containing family M member 1P;												0						CCTTCAGGGCGCCACTCCGGC	0.507													5	33					0	0	0.001984	0	0	
NOL11	25926	broad.mit.edu	37	17	65720271	65720271	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:65720271C>T	uc002jgd.1	+	6	629	c.626C>T	c.(625-627)GCA>GTA	p.A209V	NOL11_uc010wql.1_Missense_Mutation_p.A27V|NOL11_uc010deu.1_5'UTR	NM_015462	NP_056277	Q9H8H0	NOL11_HUMAN	nucleolar protein 11	209						nucleolus					0	all_cancers(12;1.54e-10)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0518)|COAD - Colon adenocarcinoma(4;0.0977)|LUSC - Lung squamous cell carcinoma(166;0.24)			AGTTTTACTGCATCTGTAGAT	0.303													5	31					0	0	0.000602	0	0	
BPTF	2186	broad.mit.edu	37	17	65942195	65942195	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:65942195G>T	uc002jgf.2	+	21	7432	c.7371G>T	c.(7369-7371)CAG>CAT	p.Q2457H	BPTF_uc002jge.2_Intron|BPTF_uc002jgg.2_Intron|BPTF_uc002jgh.2_5'Flank	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2583					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			CTCAGATACAGGCTCAGCAAA	0.493													13	41					5.50884e-06	5.90471e-06	0.013537	1	0	
C17orf77	146723	broad.mit.edu	37	17	72588709	72588709	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:72588709C>T	uc002jla.1	+	3	886	c.524C>T	c.(523-525)ACG>ATG	p.T175M	CD300LD_uc002jkz.2_5'Flank	NM_152460	NP_689673	Q96MU5	CQ077_HUMAN	hypothetical protein LOC146723	175						extracellular region					0						GAGGAGAGGACGGACAAGGCC	0.612													4	30					0	0	0.009096	0	0	
GGA3	23163	broad.mit.edu	37	17	73235131	73235131	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:73235131T>G	uc002jni.1	-	15	1823	c.1814A>C	c.(1813-1815)AAC>ACC	p.N605T	GGA3_uc002jnj.1_Missense_Mutation_p.N572T|GGA3_uc010wrw.1_Missense_Mutation_p.N483T|GGA3_uc002jnk.1_Missense_Mutation_p.N533T|GGA3_uc010wrx.1_Missense_Mutation_p.N483T|GGA3_uc010wry.1_Missense_Mutation_p.N533T	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	605	GAE.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			GCGGAAGCCGTTTTTATCGTA	0.592											OREG0024729	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	25					0	0	0.006214	0	0	
GGA3	23163	broad.mit.edu	37	17	73237561	73237561	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:73237561A>G	uc002jni.1	-	10	875	c.866T>C	c.(865-867)GTC>GCC	p.V289A	GGA3_uc002jnj.1_Missense_Mutation_p.V256A|GGA3_uc010wrw.1_Missense_Mutation_p.V167A|GGA3_uc002jnk.1_Missense_Mutation_p.V217A|GGA3_uc010wrx.1_Missense_Mutation_p.V167A|GGA3_uc010wry.1_Missense_Mutation_p.V217A	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	289	GAT.|Binds to ARF1 (in long isoform).				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			AGAGTTGATGACCCGGGAGAG	0.522													23	147					0	0	0.014323	0	0	
ITGB4	3691	broad.mit.edu	37	17	73748326	73748326	+	Missense_Mutation	SNP	C	T	T	rs34092482		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:73748326C>T	uc002jpg.2	+	31	4052	c.3865C>T	c.(3865-3867)CGG>TGG	p.R1289W	ITGB4_uc002jph.2_Missense_Mutation_p.R1289W|ITGB4_uc002jpi.3_Missense_Mutation_p.R1289W|ITGB4_uc002jpj.2_Missense_Mutation_p.R1289W|GALK1_uc010wsi.1_Intron	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1289	Fibronectin type-III 2.|Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			TGAGAACCTTCGGGAGTCCCA	0.617													37	131					0	0	0.004878	0	0	
FBF1	85302	broad.mit.edu	37	17	73922938	73922938	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:73922938C>A	uc002jqc.2	-	9	728	c.454G>T	c.(454-456)GGA>TGA	p.G152*	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Nonsense_Mutation_p.G142*|FBF1_uc002jqd.1_Nonsense_Mutation_p.G152*	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	152											0						GAGAGAAGTCCTCTCAATGGG	0.522													4	10					0.00909568	0.00928865	0.009096	1	0	
GALR2	8811	broad.mit.edu	37	17	74071298	74071298	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:74071298A>G	uc002jqm.1	+	1	415	c.334A>G	c.(334-336)AGC>GGC	p.S112G	SRP68_uc010wsu.1_5'Flank|SRP68_uc002jqk.1_5'Flank|SRP68_uc002jql.1_5'Flank	NM_003857	NP_003848	O43603	GALR2_HUMAN	galanin receptor 2	112	Helical; Name=3; (Potential).				digestion|elevation of cytosolic calcium ion concentration|feeding behavior|learning or memory|muscle contraction	integral to membrane|plasma membrane	galanin receptor activity				0						CATGCACGCCAGCAGCTTCAC	0.677													9	38					0	0	0.006214	0	0	
RHBDF2	79651	broad.mit.edu	37	17	74475291	74475291	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:74475291C>T	uc002jrq.1	-	5	721	c.428G>A	c.(427-429)AGC>AAC	p.S143N	RHBDF2_uc002jrp.1_Missense_Mutation_p.S114N|RHBDF2_uc002jrr.1_5'UTR|RHBDF2_uc010wtf.1_Missense_Mutation_p.S114N|RHBDF2_uc002jrs.1_Missense_Mutation_p.S114N	NM_024599	NP_078875	Q6PJF5	RHDF2_HUMAN	rhomboid, veinlet-like 6 isoform 1	143	Cytoplasmic (Potential).				negative regulation of protein secretion|protein transport|proteolysis	endoplasmic reticulum membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity				0						GTGGTGCAGGCTGCGGCGCTG	0.692													5	19					0	0	0.001168	0	0	
TMC8	147138	broad.mit.edu	37	17	76137013	76137013	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:76137013A>T	uc002jup.2	+	16	2383	c.2001A>T	c.(1999-2001)CAA>CAT	p.Q667H	TMC8_uc002juq.2_Missense_Mutation_p.Q444H	NM_152468	NP_689681	Q8IU68	TMC8_HUMAN	transmembrane channel-like 8	667	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.192)			CTGCCTCCCAAGCTTCGCGCC	0.731									Epidermodysplasia_Verruciformis_Familial_Clustering_of				3	4					0	0	0.004672	0	0	
LGALS3BP	3959	broad.mit.edu	37	17	76970808	76970808	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:76970808C>T	uc002jwh.2	-	4	517	c.338G>A	c.(337-339)TGC>TAC	p.C113Y	LGALS3BP_uc002jwi.2_Intron|LGALS3BP_uc010dhr.2_Intron	NM_005567	NP_005558	Q08380	LG3BP_HUMAN	galectin 3 binding protein	113	SRCR.				cell adhesion|cellular defense response	extracellular space|membrane|proteinaceous extracellular matrix	protein binding|scavenger receptor activity			central_nervous_system(3)|ovary(1)	4			BRCA - Breast invasive adenocarcinoma(99;0.0677)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			CTCGTGCCTGCAGTTGCTCTT	0.672													9	18					0	0	0.004482	0	0	
RNF213	57674	broad.mit.edu	37	17	78345759	78345759	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr17:78345759T>C	uc002jyh.1	+	22	6953	c.6730T>C	c.(6730-6732)TAC>CAC	p.Y2244H	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.Y626H	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AACTGAACTGTACATGCTCTT	0.333													5	20					0	0	0.000602	0	0	
SMCHD1	23347	broad.mit.edu	37	18	2700849	2700849	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:2700849C>T	uc002klm.3	+	12	1769	c.1580C>T	c.(1579-1581)ACG>ATG	p.T527M	SMCHD1_uc002klk.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	527					chromosome organization		ATP binding				0						AATAAATTGACGTTTATGGAT	0.328													10	54					0	0	0.008291	0	0	
DLGAP1	9229	broad.mit.edu	37	18	3879724	3879724	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:3879724G>A	uc002kmf.2	-	1	412	c.345C>T	c.(343-345)CGC>CGT	p.R115R	DLGAP1_uc010wyz.1_Silent_p.R115R|DLGAP1_uc002kmk.2_Silent_p.R115R|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	115					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				GATAGCCATCGCGGCTGAGTG	0.687													20	64					0	0	0.010504	0	0	
SEH1L	81929	broad.mit.edu	37	18	12951893	12951893	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:12951893G>A	uc002krr.2	+	2	289	c.151G>A	c.(151-153)GCT>ACT	p.A51T	SEH1L_uc002krq.2_Missense_Mutation_p.A51T	NM_031216	NP_112493	Q96EE3	SEH1_HUMAN	sec13-like protein isoform 2	51					attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|carbohydrate metabolic process|cell division|glucose transport|mitotic metaphase plate congression|mitotic prometaphase|mRNA transport|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex					0						GCATTGTACTGCTAGCTGGAA	0.249													20	98					0	0	0.010504	0	0	
ZNF521	25925	broad.mit.edu	37	18	22806905	22806905	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:22806905T>C	uc002kvk.2	-	4	1224	c.977A>G	c.(976-978)TAC>TGC	p.Y326C	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.Y326C|ZNF521_uc002kvl.2_Missense_Mutation_p.Y106C	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	326	C2H2-type 8.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					CATGTGGCTGTACAGTTCCTC	0.537			T	PAX5	ALL								6	38					0	0	0.001168	0	0	
GALNT1	2589	broad.mit.edu	37	18	33243730	33243730	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:33243730C>T	uc010dmu.2	+	3	331	c.278C>T	c.(277-279)GCA>GTA	p.A93V	GALNT1_uc002kyz.3_Missense_Mutation_p.A33V|GALNT1_uc002kza.2_Missense_Mutation_p.A93V|GALNT1_uc002kzb.2_Missense_Mutation_p.A93V	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	93	Lumenal (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						GAGATGATTGCACTCAACAGA	0.343													38	52					0	0	0.009718	0	0	
SLC14A2	8170	broad.mit.edu	37	18	43253755	43253755	+	Nonsense_Mutation	SNP	C	T	T	rs151319242		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:43253755C>T	uc010dnj.2	+	19	2806	c.2485C>T	c.(2485-2487)CAG>TAG	p.Q829*	SLC14A2_uc002lbe.2_Nonsense_Mutation_p.Q829*	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	829						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						CATCACCTGGCAGACGCACCT	0.478													5	40					0	0	0.000602	0	0	
C18orf25	147339	broad.mit.edu	37	18	43795786	43795786	+	Translation_Start_Site	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:43795786C>A	uc002lbw.2	+	2	319	c.-60C>A	c.(-62--58)TCCTG>TCATG		C18orf25_uc002lbx.2_Translation_Start_Site	NM_145055	NP_659492	Q96B23	CR025_HUMAN	ARKadia-like 1 isoform a											central_nervous_system(2)	2						GGTTGCTTTCCTGTTGCATCT	0.383													5	33					3.59834e-05	3.81827e-05	0.001168	1	0	
DCC	1630	broad.mit.edu	37	18	50936877	50936877	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:50936877G>A	uc002lfe.1	+	20	3578	c.2991G>A	c.(2989-2991)ATG>ATA	p.M997I	DCC_uc010xdr.1_Missense_Mutation_p.M825I|DCC_uc010dpf.1_Missense_Mutation_p.M632I	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	997	Extracellular (Potential).|Fibronectin type-III 6.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		ACTGGATTATGGAAACAATCA	0.363													31	92					0	0	0.003755	0	0	
SERPINB4	6318	broad.mit.edu	37	18	61306894	61306894	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:61306894T>C	uc002ljf.2	-	6	672	c.586A>G	c.(586-588)AAA>GAA	p.K196E	SERPINB4_uc002lje.2_Missense_Mutation_p.K196E|SERPINB4_uc002ljg.2_Intron	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	196					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						TTTTCCTCTTTAGTGTTTTCT	0.308													10	25					0	0	0.008291	0	0	
CDH7	1005	broad.mit.edu	37	18	63547708	63547708	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:63547708A>G	uc002ljz.2	+	12	2261	c.1936A>G	c.(1936-1938)ATC>GTC	p.I646V	CDH7_uc002lkb.2_Missense_Mutation_p.I646V	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	646	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				AGAAAGAGACATCAGAGAAAA	0.453													8	32					0	0	0.003080	0	0	
CDH19	28513	broad.mit.edu	37	18	64235727	64235727	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:64235727G>A	uc002lkc.1	-	3	554	c.416C>T	c.(415-417)TCG>TTG	p.S139L	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Missense_Mutation_p.S139L|CDH19_uc002lkd.2_Missense_Mutation_p.S139L	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	139	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				ATTGATATCCGAAACTTTGAT	0.418													13	70					0	0	0.001855	0	0	
NETO1	81832	broad.mit.edu	37	18	70450955	70450955	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:70450955G>A	uc002lkw.2	-	7	1110	c.826C>T	c.(826-828)CGA>TGA	p.R276*	NETO1_uc002lkx.1_Nonsense_Mutation_p.R275*|NETO1_uc002lky.1_Nonsense_Mutation_p.R276*	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	276	CUB 2.|Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		CGGCTGTTTCGACTGCCCTCA	0.468													16	95					0	0	0.004007	0	0	
MBP	4155	broad.mit.edu	37	18	74729219	74729219	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:74729219C>T	uc010xfd.1	-	4	409	c.145G>A	c.(145-147)GCA>ACA	p.A49T	MBP_uc002lml.2_5'Flank|MBP_uc002lmn.2_5'Flank|MBP_uc002lmp.2_5'Flank|MBP_uc010xfe.1_5'UTR|MBP_uc002lmr.2_Missense_Mutation_p.A49T	NM_001025101	NP_001020272	P02686	MBP_HUMAN	Golli-mbp isoform 1	49					central nervous system development|immune response|synaptic transmission	plasma membrane	structural constituent of myelin sheath			haematopoietic_and_lymphoid_tissue(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.79e-06)|BRCA - Breast invasive adenocarcinoma(31;0.113)|READ - Rectum adenocarcinoma(1;0.188)		TTCGCATCTGCCTCTCCTGCA	0.562													4	35					0	0	0.009096	0	0	
MIER2	54531	broad.mit.edu	37	19	327209	327209	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:327209C>T	uc002lok.1	-	5	426	c.417G>A	c.(415-417)ACG>ACA	p.T139T		NM_017550	NP_060020	Q8N344	MIER2_HUMAN	mesoderm induction early response 1, family	139					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGATGATTGCGTCTCTTCCT	0.463													35	172					0	0	0.003271	0	0	
GNA11	2767	broad.mit.edu	37	19	3119273	3119273	+	Missense_Mutation	SNP	G	A	A	rs144829732		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:3119273G>A	uc002lxd.2	+	6	1047	c.805G>A	c.(805-807)GTC>ATC	p.V269I	uc010xhe.1_5'Flank	NM_002067	NP_002058	P29992	GNA11_HUMAN	guanine nucleotide binding protein (G protein),	269					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation|regulation of action potential	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			eye(70)|skin(16)	86		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.79e-05)|OV - Ovarian serous cystadenocarcinoma(105;2.68e-113)|Epithelial(107;1.22e-111)|all cancers(105;5.78e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00141)|STAD - Stomach adenocarcinoma(1328;0.181)		GAACTCCTCCGTCATCCTCTT	0.597			Mis		uveal melanoma								9	85					0	0	0.004482	0	0	
TJP3	27134	broad.mit.edu	37	19	3748014	3748014	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:3748014G>A	uc010xhv.1	+	18	2644	c.2644G>A	c.(2644-2646)GTG>ATG	p.V882M	TJP3_uc010xhs.1_Missense_Mutation_p.V849M|TJP3_uc010xht.1_Missense_Mutation_p.V813M|TJP3_uc010xhu.1_Missense_Mutation_p.V858M|TJP3_uc010xhw.1_Missense_Mutation_p.V868M	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	863						tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCGGAGCCCGTGCAGGCAGA	0.692													4	11					0	0	0.009096	0	0	
MAP2K2	5605	broad.mit.edu	37	19	4117450	4117450	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:4117450C>T	uc002lzk.2	-	2	524	c.270G>A	c.(268-270)CAG>CAA	p.Q90Q		NM_030662	NP_109587	P36507	MP2K2_HUMAN	mitogen-activated protein kinase kinase 2	90	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|extracellular region	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGGTCTGTGCTGGACTTTGG	0.632									Cardiofaciocutaneous_syndrome				8	39					0	0	0.004482	0	0	
MPND	84954	broad.mit.edu	37	19	4357406	4357406	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:4357406G>A	uc002mae.2	+	9	1220	c.1153G>A	c.(1153-1155)GCC>ACC	p.A385T	MPND_uc010dtx.2_RNA|MPND_uc002mag.2_Missense_Mutation_p.A335T|MPND_uc002maf.2_Missense_Mutation_p.A385T|MPND_uc002mah.2_Missense_Mutation_p.A273T|MPND_uc002mai.2_Missense_Mutation_p.A244T	NM_032868	NP_116257	Q8N594	MPND_HUMAN	MPN domain containing isoform 1	385							peptidase activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCCTGCCTCGCCCTGCTCTG	0.692													6	22					0	0	0.001168	0	0	
GTF2F1	2962	broad.mit.edu	37	19	6380326	6380326	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:6380326A>C	uc002meq.2	-	13	1805	c.1520T>G	c.(1519-1521)ATC>AGC	p.I507S	GTF2F1_uc010xjb.1_Missense_Mutation_p.I328S|GTF2F1_uc010xjc.1_Missense_Mutation_p.I422S	NM_002096	NP_002087	P35269	T2FA_HUMAN	general transcription factor IIF, polypeptide 1,	507					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|response to virus|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cell junction|transcription factor TFIIF complex	catalytic activity|DNA binding|phosphatase activator activity|transcription coactivator activity|transcription factor binding				0						TTTGTCGTTGATCATCTTGCG	0.542													32	155					0	0	0.010818	0	0	
C3	718	broad.mit.edu	37	19	6680187	6680187	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:6680187A>G	uc002mfm.2	-	36	4500	c.4438T>C	c.(4438-4440)TAC>CAC	p.Y1480H	C3_uc002mfl.2_Missense_Mutation_p.Y216H	NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	1480					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TAATAGGCGTAGACCTTGACT	0.512													15	67					0	0	0.003163	0	0	
LRRC8E	80131	broad.mit.edu	37	19	7964276	7964276	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:7964276C>T	uc002mir.2	+	3	970	c.869C>T	c.(868-870)ACG>ATG	p.T290M		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	290						integral to membrane				lung(1)|pancreas(1)	2						AGGGTGGAGACGTCAGAGGTC	0.547													8	34					0	0	0.003080	0	0	
ACTL9	284382	broad.mit.edu	37	19	8808894	8808894	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:8808894A>T	uc002mkl.2	-	1	279	c.158T>A	c.(157-159)GTT>GAT	p.V53D		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	53						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						CATGTCAATAACCACCACGCC	0.647													15	68					0	0	0.004990	0	0	
MUC16	94025	broad.mit.edu	37	19	9060506	9060506	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:9060506A>G	uc002mkp.2	-	3	27144	c.26940T>C	c.(26938-26940)TCT>TCC	p.S8980S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8982	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTATGGTTGTAGAAACAATGT	0.498													35	142					0	0	0.004289	0	0	
YIPF2	78992	broad.mit.edu	37	19	11038348	11038348	+	Silent	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:11038348G>T	uc002mqb.2	-	4	361	c.237C>A	c.(235-237)ACC>ACA	p.T79T	YIPF2_uc002mqc.2_Silent_p.T79T|C19orf52_uc002mqd.1_5'Flank	NM_024029	NP_076934	Q9BWQ6	YIPF2_HUMAN	Yip1 domain family, member 2	79	Cytoplasmic (Potential).					integral to membrane|transport vesicle					0						AGTAGCTGAAGGTCCAGAATC	0.527													6	49					1.6384e-10	1.82638e-10	0.001984	1	0	
SMARCA4	6597	broad.mit.edu	37	19	11138595	11138595	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:11138595G>A	uc002mqf.3	+	24	3635	c.3351G>A	c.(3349-3351)GCG>GCA	p.A1117A	SMARCA4_uc010dxp.2_Silent_p.A1117A|SMARCA4_uc010dxo.2_Silent_p.A1117A|SMARCA4_uc002mqg.1_Silent_p.A1117A|SMARCA4_uc010dxq.2_Silent_p.A1117A|SMARCA4_uc010dxr.2_Silent_p.A1117A|SMARCA4_uc002mqj.3_Silent_p.A1117A|SMARCA4_uc010dxs.2_Silent_p.A1117A|SMARCA4_uc010dxt.1_Silent_p.A337A|SMARCA4_uc002mqh.3_Silent_p.A240A|SMARCA4_uc002mqi.1_Silent_p.A320A	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	1117	Helicase C-terminal.				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(2)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				ATTACTTTGCGTATCGCGGCT	0.473			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				31	129					0	0	0.010818	0	0	
KANK2	25959	broad.mit.edu	37	19	11280823	11280823	+	Silent	SNP	G	A	A	rs146928170		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:11280823G>A	uc010dxv.2	-	13	2871	c.2313C>T	c.(2311-2313)GAC>GAT	p.D771D	KANK2_uc002mqm.2_Silent_p.D779D|KANK2_uc002mqo.3_Silent_p.D771D|KANK2_uc002mqp.1_Silent_p.D580D	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	771	ANK 4.										0						CCGTGGAGCCGTCATCATCTT	0.647													12	64					0	0	0.013537	0	0	
MAN2B1	4125	broad.mit.edu	37	19	12774530	12774530	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:12774530C>T	uc002mub.2	-	5	826	c.750G>A	c.(748-750)GCG>GCA	p.A250A	MAN2B1_uc010dyv.1_Silent_p.A250A	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	250					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						TGAAGAGGTCCGCGGTCGGGG	0.443													5	18					0	0	0.000602	0	0	
MAST1	22983	broad.mit.edu	37	19	12985409	12985409	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:12985409T>C	uc002mvm.2	+	26	4566	c.4438T>C	c.(4438-4440)TGG>CGG	p.W1480R		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1480					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CCGGGAGCGCTGGGTGTTGGA	0.731													3	15					0	0	0.004672	0	0	
PRKACA	5566	broad.mit.edu	37	19	14211688	14211688	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:14211688G>A	uc002myc.2	-	5	569	c.369C>T	c.(367-369)TAC>TAT	p.Y123Y	PRKACA_uc002myb.2_Silent_p.Y115Y|PRKACA_uc010xnm.1_Silent_p.Y65Y|PRKACA_uc002myd.2_Silent_p.Y65Y	NM_002730	NP_002721	P17612	KAPCA_HUMAN	cAMP-dependent protein kinase catalytic subunit	123	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|regulation of insulin secretion|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|cAMP-dependent protein kinase inhibitor activity|protein kinase binding			lung(1)	1						CGCCGGGCACGTACTCCATGA	0.602													7	41					0	0	0.001984	0	0	
PKN1	5585	broad.mit.edu	37	19	14574680	14574680	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:14574680C>T	uc002myp.2	+	11	1704	c.1536C>T	c.(1534-1536)GTC>GTT	p.V512V	PKN1_uc002myq.2_Silent_p.V518V	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	512					activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						ACATCGATGTCGCCACGTGGG	0.682													8	34					0	0	0.006214	0	0	
EMR2	30817	broad.mit.edu	37	19	14854579	14854579	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:14854579G>A	uc002mzp.1	-	19	2657	c.2201C>T	c.(2200-2202)GCG>GTG	p.A734V	EMR2_uc010dzs.1_Missense_Mutation_p.A193V|EMR2_uc010xnw.1_Missense_Mutation_p.A676V|EMR2_uc002mzo.1_Missense_Mutation_p.A723V|EMR2_uc002mzq.1_Missense_Mutation_p.A674V|EMR2_uc002mzr.1_Missense_Mutation_p.A685V|EMR2_uc002mzs.1_Missense_Mutation_p.A592V|EMR2_uc002mzt.1_Missense_Mutation_p.A630V|EMR2_uc002mzu.1_Missense_Mutation_p.A641V|EMR2_uc010xnx.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	734	Cytoplasmic (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						CTGAGCTGTCGCTTTAAATGC	0.547													5	58					0	0	0.000602	0	0	
SLC1A6	6511	broad.mit.edu	37	19	15079275	15079275	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:15079275G>A	uc002naa.1	-	3	396	c.388C>T	c.(388-390)CGG>TGG	p.R130W	SLC1A6_uc010dzu.1_Missense_Mutation_p.R130W|SLC1A6_uc010xod.1_Intron|SLC1A6_uc002nab.2_Missense_Mutation_p.R130W|SLC1A6_uc002nac.2_Missense_Mutation_p.R130W|SLC1A6_uc002nad.1_Missense_Mutation_p.R130W	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	130					synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	ACAGCTGCCCGCATCCCCATC	0.607													9	14					0	0	0.004482	0	0	
BRD4	23476	broad.mit.edu	37	19	15383721	15383721	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:15383721G>A	uc002nar.2	-	2	412	c.190C>T	c.(190-192)CAA>TAA	p.Q64*	BRD4_uc002nas.2_Nonsense_Mutation_p.Q64*|BRD4_uc002nat.3_Nonsense_Mutation_p.Q64*|BRD4_uc002nau.3_Nonsense_Mutation_p.Q64*	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	64					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			AGCAGGTATTGCAGTTGGTTG	0.602			T	NUT|C15orf55	lethal midline carcinoma of young people								14	51					0	0	0.003163	0	0	
CYP4F3	4051	broad.mit.edu	37	19	15752261	15752261	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:15752261G>A	uc002nbj.2	+	2	86	c.36G>A	c.(34-36)TGG>TGA	p.W12*	CYP4F3_uc010xok.1_Nonsense_Mutation_p.W12*|CYP4F3_uc010xol.1_Nonsense_Mutation_p.W12*|CYP4F3_uc010xom.1_5'UTR|CYP4F3_uc002nbk.2_Nonsense_Mutation_p.W12*	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	12	Helical; (Potential).				leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						TGGGCCTTTGGCCAATGGCAG	0.652													8	49					0	0	0.006214	0	0	
SIN3B	23309	broad.mit.edu	37	19	16976446	16976446	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:16976446G>A	uc002ney.1	+	12	1719	c.1705G>A	c.(1705-1707)GTT>ATT	p.V569I	SIN3B_uc002nez.1_Missense_Mutation_p.V537I|SIN3B_uc010xpi.1_Missense_Mutation_p.V127I	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	569	Interaction with SDS3 and HDAC1 (By similarity).				cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						CGCTGTCCCCGTTGTCCTGAA	0.448													7	16					0	0	0.001984	0	0	
USHBP1	83878	broad.mit.edu	37	19	17361173	17361173	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:17361173C>T	uc002nfs.1	-	13	2086	c.1973G>A	c.(1972-1974)CGC>CAC	p.R658H	USHBP1_uc002nfr.1_Missense_Mutation_p.R284H|USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Missense_Mutation_p.R594H	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	658	Potential.						PDZ domain binding			ovary(1)	1						CAACTTCCGGCGTTGCTCTTC	0.672													12	45					0	0	0.010729	0	0	
PIK3R2	5296	broad.mit.edu	37	19	18277076	18277076	+	Missense_Mutation	SNP	G	A	A	rs143821279		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:18277076G>A	uc002nia.1	+	12	2035	c.1523G>A	c.(1522-1524)CGC>CAC	p.R508H	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	508					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						TACCTGGAGCGCTTCCGGCGT	0.502													4	31					0	0	0.009096	0	0	
KIAA1683	80726	broad.mit.edu	37	19	18376403	18376403	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:18376403C>T	uc002nin.2	-	3	2163	c.1947G>A	c.(1945-1947)GTG>GTA	p.V649V	KIAA1683_uc010ebn.2_Silent_p.V649V|KIAA1683_uc010xqe.1_Silent_p.V603V	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	649						mitochondrion				ovary(2)	2						TGTCTACAGGCACATACACGT	0.587													11	49					0	0	0.010729	0	0	
KIAA0892	23383	broad.mit.edu	37	19	19431805	19431805	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:19431805T>C	uc002nmk.3	+	1	176	c.137T>C	c.(136-138)CTG>CCG	p.L46P	SF4_uc002nmh.2_5'Flank|SF4_uc002nmi.2_5'Flank|SF4_uc002nmj.2_5'Flank|SF4_uc010xqr.1_5'Flank|SF4_uc010xqs.1_5'Flank	NM_015329	NP_056144	Q9Y6X3	SCC4_HUMAN	hypothetical protein LOC23383 precursor	46	Sufficient for interaction with NIPBL.				cell division|maintenance of mitotic sister chromatid cohesion	chromatin|nucleoplasm|SMC loading complex	protein N-terminus binding				0						AAAATCCGCCTGTGCGTGCAC	0.557													3	11					0	0	0.009096	0	0	
LOC100101266	100101266	broad.mit.edu	37	19	24345659	24345659	+	RNA	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:24345659G>A	uc010edb.1	-	1		c.591C>T				NR_003603				Homo sapiens hepatitis A virus cellular receptor 1 pseudogene (LOC100101266), non-coding RNA.												0						GGGCAATGGCGTTGGAGGAAC	0.458													8	49					0	0	0.004482	0	0	
RHPN2	85415	broad.mit.edu	37	19	33493301	33493301	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:33493301C>G	uc002nuf.2	-	9	1023	c.957G>C	c.(955-957)GAG>GAC	p.E319D	RHPN2_uc010xro.1_Missense_Mutation_p.E168D|RHPN2_uc002nue.2_Missense_Mutation_p.E49D	NM_033103	NP_149094	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	319	BRO1.				signal transduction	perinuclear region of cytoplasm	protein binding			central_nervous_system(5)|ovary(1)	6	Esophageal squamous(110;0.137)					GTTGGTAGACCTCTCCCACCT	0.587													14	62					0	0	0.001855	0	0	
LRP3	4037	broad.mit.edu	37	19	33697253	33697253	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:33697253G>A	uc010edh.2	+	5	1670	c.1577G>A	c.(1576-1578)CGC>CAC	p.R526H	LRP3_uc010xrp.1_Missense_Mutation_p.R400H|LRP3_uc002nuk.3_Missense_Mutation_p.R400H	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	526	Cytoplasmic (Potential).				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					TACTCACTGCGCACGCAGGAA	0.657													3	10					0	0	0.004672	0	0	
KCTD15	79047	broad.mit.edu	37	19	34297878	34297878	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:34297878G>A	uc002nuy.3	+	5	621	c.353G>A	c.(352-354)CGG>CAG	p.R118Q	KCTD15_uc002nuv.2_Missense_Mutation_p.R118Q|KCTD15_uc002nuw.3_Missense_Mutation_p.R118Q|KCTD15_uc010xrt.1_Missense_Mutation_p.R118Q|KCTD15_uc002nux.3_Missense_Mutation_p.R118Q	NM_001129994	NP_001123466	Q96SI1	KCD15_HUMAN	potassium channel tetramerisation domain	118	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	Esophageal squamous(110;0.162)					AGCTTCCTGCGGACGTCCAAG	0.542													16	60					0	0	0.004007	0	0	
KCTD15	79047	broad.mit.edu	37	19	34302307	34302307	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:34302307C>T	uc002nuy.3	+	6	811	c.543C>T	c.(541-543)ATC>ATT	p.I181I	KCTD15_uc002nuv.2_Silent_p.I181I|KCTD15_uc002nuw.3_Silent_p.I181I|KCTD15_uc010xrt.1_Silent_p.I181I|KCTD15_uc002nux.3_Silent_p.I181I	NM_001129994	NP_001123466	Q96SI1	KCD15_HUMAN	potassium channel tetramerisation domain	181						voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	Esophageal squamous(110;0.162)					GCGAGCGGATCGCACTCAGCG	0.701													4	13					0	0	0.009096	0	0	
FAM187B	148109	broad.mit.edu	37	19	35719411	35719411	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:35719411C>G	uc002nyk.1	-	1	218	c.173G>C	c.(172-174)GGC>GCC	p.G58A		NM_152481	NP_689694	Q17R55	F187B_HUMAN	family with sequence similarity 187, member B	58	Extracellular (Potential).					integral to membrane				ovary(2)	2						GCCCTTCTTGCCTTGTGTGAA	0.517													9	45					0	0	0.004482	0	0	
LRFN3	79414	broad.mit.edu	37	19	36435744	36435744	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:36435744C>T	uc002oco.2	+	3	2162	c.1710C>T	c.(1708-1710)CCC>CCT	p.P570P		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	570	Cytoplasmic (Potential).				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GCCAGCCCCCCGGCAAGGCCA	0.468													7	29					0	0	0.001984	0	0	
ZNF793	390927	broad.mit.edu	37	19	38028433	38028433	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:38028433C>T	uc010efm.2	+	8	1315	c.873C>T	c.(871-873)GCC>GCT	p.A291A	ZNF793_uc010xts.1_Silent_p.A291A|ZNF793_uc010efo.2_Intron	NM_001013659	NP_001013681	Q6ZN11	ZN793_HUMAN	zinc finger protein 793	291	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTGGGAAAGCCTTTACCCAGA	0.458													4	42					0	0	0.009096	0	0	
PLD3	23646	broad.mit.edu	37	19	40877625	40877625	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:40877625C>T	uc002onm.3	+	9	1122	c.724C>T	c.(724-726)CGA>TGA	p.R242*	PLD3_uc002onj.3_Nonsense_Mutation_p.R242*|PLD3_uc002onk.3_Nonsense_Mutation_p.R242*|PLD3_uc002onl.3_Nonsense_Mutation_p.R242*|PLD3_uc002onn.2_Nonsense_Mutation_p.R242*	NM_001031696	NP_001026866	Q8IV08	PLD3_HUMAN	phospholipase D3	242	Lumenal (Potential).				lipid catabolic process	endoplasmic reticulum membrane|integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity|protein binding			skin(2)|ovary(1)	3			Lung(22;0.000636)|LUSC - Lung squamous cell carcinoma(20;0.00248)			CTGCCTGGCTCGAGACCTGAC	0.587													4	21					0	0	0.001168	0	0	
NUMBL	9253	broad.mit.edu	37	19	41188832	41188832	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:41188832G>A	uc002oon.2	-	4	459	c.291C>T	c.(289-291)CAC>CAT	p.H97H	NUMBL_uc010xvq.1_Silent_p.H56H|NUMBL_uc002ooo.2_Silent_p.H97H|NUMBL_uc010xvr.1_Silent_p.H56H	NM_004756	NP_004747	Q9Y6R0	NUMBL_HUMAN	numb homolog (Drosophila)-like	97	PID.				cytokine-mediated signaling pathway|lateral ventricle development|neuroblast division in subventricular zone|protein metabolic process	cytoplasm	protein binding			lung(3)|ovary(1)|breast(1)	5			Lung(22;0.000393)|LUSC - Lung squamous cell carcinoma(20;0.00105)			CTTCACACACGTGCATTCCCC	0.597													13	61					0	0	0.003163	0	0	
CYP2A7	1549	broad.mit.edu	37	19	41386388	41386388	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:41386388C>T	uc002opm.2	-	3	1031	c.489G>A	c.(487-489)ACG>ACA	p.T163T	CYP2A7_uc002opo.2_Silent_p.T163T|CYP2A7_uc002opn.2_Silent_p.T112T	NM_000764	NP_000755	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A,	163				T -> S (in Ref. 1; AAA52138).		endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			ACTCACCGTGCGTGCTCCGGA	0.662													10	59					0	0	0.010729	0	0	
PSG9	5678	broad.mit.edu	37	19	43772054	43772054	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:43772054G>A	uc002owd.3	-	2	411	c.312C>T	c.(310-312)AAC>AAT	p.N104N	PSG9_uc002owe.3_Silent_p.N104N|PSG9_uc010xwm.1_Silent_p.N104N|PSG9_uc002owf.3_Silent_p.N104N|PSG9_uc002owg.2_Silent_p.N104N|PSG9_uc002owh.2_Silent_p.N104N	NM_002784	NP_002775	Q00887	PSG9_HUMAN	pregnancy specific beta-1-glycoprotein 9	104	Ig-like V-type.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				GCAGGGATGCGTTGGAATATA	0.403													52	222					0	0	0.014410	0	0	
APOE	348	broad.mit.edu	37	19	45411139	45411139	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:45411139C>T	uc002pab.2	+	3	249	c.166C>T	c.(166-168)CGC>TGC	p.R56C		NM_000041	NP_000032	P02649	APOE_HUMAN	apolipoprotein E precursor	56					anti-apoptosis|Cdc42 protein signal transduction|cell death|cGMP-mediated signaling|cholesterol efflux|cholesterol homeostasis|chylomicron remnant clearance|cytoskeleton organization|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|induction of apoptosis|intracellular transport|negative regulation of blood vessel endothelial cell migration|negative regulation of cholesterol biosynthetic process|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of platelet activation|nitric oxide mediated signal transduction|phospholipid efflux|positive regulation of cGMP biosynthetic process|positive regulation of cholesterol efflux|positive regulation of cholesterol esterification|positive regulation of low-density lipoprotein particle receptor catabolic process|positive regulation of membrane protein ectodomain proteolysis|positive regulation of nitric-oxide synthase activity|receptor-mediated endocytosis|regulation of axon extension|regulation of neuronal synaptic plasticity|response to reactive oxygen species|reverse cholesterol transport|synaptic transmission, cholinergic|triglyceride metabolic process|very-low-density lipoprotein particle clearance|very-low-density lipoprotein particle remodeling	chylomicron|dendrite|high-density lipoprotein particle|intermediate-density lipoprotein particle|low-density lipoprotein particle|neuronal cell body|very-low-density lipoprotein particle	antioxidant activity|beta-amyloid binding|heparin binding|low-density lipoprotein particle receptor binding|metal chelating activity|phosphatidylcholine-sterol O-acyltransferase activator activity|phospholipid binding|protein heterodimerization activity|protein homodimerization activity|tau protein binding|very-low-density lipoprotein particle receptor binding				0	Lung NSC(12;0.0018)|all_lung(12;0.00481)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|Epithelial(262;0.174)	Human Serum Albumin(DB00062)|Serum albumin iodonated(DB00064)	GGATTACCTGCGCTGGGTGCA	0.652													6	28					0	0	0.001984	0	0	
SFRS16	11129	broad.mit.edu	37	19	45543570	45543570	+	Splice_Site	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:45543570G>A	uc002pak.2	+	2	197	c.99_splice	c.e2+1	p.I33_splice	SFRS16_uc002pal.2_Splice_Site|SFRS16_uc010xxh.1_Splice_Site_p.I33_splice|SFRS16_uc002pam.2_Splice_Site_p.I33_splice|SFRS16_uc002pan.1_Splice_Site	NM_007056	NP_008987	Q8N2M8	CLASR_HUMAN	splicing factor, arginine/serine-rich 16						mRNA processing|RNA splicing	nucleus					0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TGAAAAGATCGTGAGTAACTG	0.542													3	9					0	0	0.004672	0	0	
GIPR	2696	broad.mit.edu	37	19	46180981	46180981	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:46180981A>G	uc002pcu.1	+	10	967	c.868A>G	c.(868-870)AAC>GAC	p.N290D	GIPR_uc002pct.1_Missense_Mutation_p.N290D|GIPR_uc010xxp.1_Missense_Mutation_p.N254D|GIPR_uc010xxq.1_Intron	NM_000164	NP_000155	P48546	GIPR_HUMAN	gastric inhibitory polypeptide receptor	290	Extracellular (Potential).				generation of precursor metabolites and energy|response to nutrient	integral to membrane|plasma membrane				skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0056)|GBM - Glioblastoma multiforme(486;0.0832)|Epithelial(262;0.199)		CTGGGAGCGCAACGAAGTCAA	0.577													15	126					0	0	0.007413	0	0	
PNMAL2	57469	broad.mit.edu	37	19	46998569	46998569	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:46998569G>A	uc002pes.2	-	1	601	c.154C>T	c.(154-156)CGA>TGA	p.R52*	uc002peu.1_3'UTR	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	52										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		ttcatgtgtcgcaacctgaac	0													15	74					0	0	0.004990	0	0	
GRLF1	2909	broad.mit.edu	37	19	47425354	47425354	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:47425354G>A	uc010ekv.2	+	1	3422	c.3422G>A	c.(3421-3423)AGC>AAC	p.S1141N		NM_004491	NP_004482	Q9NRY4	RHG35_HUMAN	glucocorticoid receptor DNA binding factor 1	1141					axon guidance|negative regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol	DNA binding|Rho GTPase activator activity|transcription corepressor activity			central_nervous_system(1)	1		all_cancers(25;1.51e-09)|all_epithelial(76;1.87e-07)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|Ovarian(192;0.0129)|all_neural(266;0.026)|Breast(70;0.077)		all cancers(93;2.03e-05)|OV - Ovarian serous cystadenocarcinoma(262;2.57e-05)|Epithelial(262;0.00135)|GBM - Glioblastoma multiforme(486;0.0289)		ATGGACACCAGCTCTCTAGAG	0.562													5	29					0	0	0.000602	0	0	
ZC3H4	23211	broad.mit.edu	37	19	47572412	47572412	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:47572412C>G	uc002pga.3	-	14	2373	c.2335G>C	c.(2335-2337)GAG>CAG	p.E779Q	ZC3H4_uc002pgb.1_Intron	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	779	Potential.						nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		TCCTCCTCCTCCTGCTGCTTC	0.701													15	74					0	0	0.003163	0	0	
GLTSCR1	29998	broad.mit.edu	37	19	48184029	48184029	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:48184029C>T	uc002phh.3	+	6	1796	c.1602C>T	c.(1600-1602)TCC>TCT	p.S534S	GLTSCR1_uc002phi.3_Silent_p.S292S	NM_015711	NP_056526	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	534							protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		CCCCCCACTCCGGGGCCCACA	0.711													9	37					0	0	0.008291	0	0	
KCNA7	3743	broad.mit.edu	37	19	49575417	49575417	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:49575417C>T	uc002pmg.2	-	1	782	c.426G>A	c.(424-426)GCG>GCA	p.A142A		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	142						voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)		CGAGCACGCGCGCGGCCTGAG	0.711													5	23					0	0	0.001984	0	0	
SYT3	84258	broad.mit.edu	37	19	51129177	51129177	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:51129177G>A	uc002pst.2	-	5	2013	c.1379C>T	c.(1378-1380)GCG>GTG	p.A460V	SYT3_uc002psv.2_Missense_Mutation_p.A460V|SYT3_uc010ycd.1_Missense_Mutation_p.A460V	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	460	C2 2.|Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		GAGGTCCATCGCTTTGAGGTT	0.373													3	16					0	0	0.004672	0	0	
ACPT	93650	broad.mit.edu	37	19	51297840	51297840	+	Splice_Site	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:51297840T>C	uc002pta.1	+	9	986	c.986_splice	c.e9+2	p.G329_splice		NM_033068	NP_149059	Q9BZG2	PPAT_HUMAN	testicular acid phosphatase precursor							integral to membrane	acid phosphatase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		AGATGGAGGGTGAGAATGGTT	0.617													4	29					0	0	0.009096	0	0	
ZNF665	79788	broad.mit.edu	37	19	53667933	53667933	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:53667933C>T	uc010eqm.1	-	4	1910	c.1810G>A	c.(1810-1812)GGC>AGC	p.G604S		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	539	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		AAGACCTTGCCACATTCATTA	0.388													13	87					0	0	0.013537	0	0	
LENG9	94059	broad.mit.edu	37	19	54973657	54973657	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:54973657A>G	uc010yez.1	-	1	1238	c.1119T>C	c.(1117-1119)GCT>GCC	p.A373A		NM_198988	NP_945339	Q96B70	LENG9_HUMAN	leukocyte receptor cluster (LRC) member 9	373					RNA metabolic process	intracellular	catalytic activity|nucleic acid binding|zinc ion binding				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.134)		CCTCCTCCCCAGCGCCTGCCA	0.652													8	56					0	0	0.003080	0	0	
KIR2DL1	3802	broad.mit.edu	37	19	55286906	55286906	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:55286906C>T	uc002qhb.1	+	4	698	c.660C>T	c.(658-660)GTC>GTT	p.V220V	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_RNA|KIR3DP1_uc010yfi.1_Intron|KIR2DL1_uc010erz.1_Silent_p.V220V	NM_014218	NP_055033	P43626	KI2L1_HUMAN	killer cell immunoglobulin-like receptor, two	220	Extracellular (Potential).				immune response|natural killer cell inhibitory signaling pathway	integral to plasma membrane	protein binding|receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		TTGTTTCTGTCACAGGTGAGG	0.547													12	138					0	0	0.002450	0	0	
ZNF606	80095	broad.mit.edu	37	19	58490991	58490991	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:58490991T>C	uc002qqw.2	-	7	1675	c.1057A>G	c.(1057-1059)ATC>GTC	p.I353V	ZNF606_uc010yhp.1_Missense_Mutation_p.I263V	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	353					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		AAATAAAAGATATTCTCATAT	0.333													21	63					0	0	0.008871	0	0	
PXDN	7837	broad.mit.edu	37	2	1652415	1652415	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:1652415G>A	uc002qxa.2	-	17	3201	c.3137C>T	c.(3136-3138)ACG>ATG	p.T1046M		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1046					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CTCTCCCAGCGTCCTCATGCC	0.602													3	11					0	0	0.004672	0	0	
GRHL1	29841	broad.mit.edu	37	2	10136026	10136026	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:10136026C>A	uc002raa.2	+	13	1690	c.1519C>A	c.(1519-1521)CCG>ACG	p.P507T	GRHL1_uc002rab.2_RNA|GRHL1_uc002rad.2_Missense_Mutation_p.P318T|GRHL1_uc010yjb.1_Missense_Mutation_p.P356T	NM_198182	NP_937825	Q9NZI5	GRHL1_HUMAN	grainyhead-like 1	507					cellular lipid metabolic process|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding			pancreas(1)|skin(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.246)		GAAAAGGGGGCCGTACGGCAC	0.473													40	140					6.5261e-18	7.35228e-18	0.008740	1	0	
GREB1	9687	broad.mit.edu	37	2	11780503	11780503	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:11780503C>T	uc002rbk.1	+	33	6073	c.5773C>T	c.(5773-5775)CGG>TGG	p.R1925W	GREB1_uc002rbp.1_Missense_Mutation_p.R923W	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1925						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GTGGCAGTTCCGGCTGCGCGA	0.617													9	49					0	0	0.008291	0	0	
MFSD2B	388931	broad.mit.edu	37	2	24247090	24247090	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:24247090C>A	uc002reo.1	+	13	1453	c.1439C>A	c.(1438-1440)TCC>TAC	p.S480Y		NM_001080473	NP_001073942	A6NFX1	MFS2B_HUMAN	major facilitator superfamily domain containing	480					transport	integral to membrane				ovary(2)	2						ATGGTCGGCTCCACTCCAAAG	0.647													3	9					6.4e-05	6.75882e-05	0.004672	1	0	
ITSN2	50618	broad.mit.edu	37	2	24524945	24524945	+	Missense_Mutation	SNP	C	T	T	rs146161429	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:24524945C>T	uc002rfe.2	-	10	1142	c.884G>A	c.(883-885)GGA>GAA	p.G295E	ITSN2_uc002rff.2_Missense_Mutation_p.G295E|ITSN2_uc002rfg.2_Missense_Mutation_p.G295E|ITSN2_uc010eyd.2_Missense_Mutation_p.G320E	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	295	EH 2.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTTTAGCTGTCCATCACCATC	0.378													5	33					0	0	0.001168	0	0	
ADCY3	109	broad.mit.edu	37	2	25042948	25042948	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:25042948G>A	uc002rfs.3	-	21	3487	c.3288C>T	c.(3286-3288)TAC>TAT	p.Y1096Y	ADCY3_uc002rfr.3_Silent_p.Y683Y|ADCY3_uc010ykm.1_Silent_p.Y1097Y	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	1096	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					AGCGGAAGCCGTACTCTCGGA	0.612													4	38					0	0	0.000602	0	0	
ADCY3	109	broad.mit.edu	37	2	25061489	25061489	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:25061489C>T	uc002rfs.3	-	7	1557	c.1358G>A	c.(1357-1359)CGC>CAC	p.R453H	ADCY3_uc002rfr.3_Missense_Mutation_p.R86H|ADCY3_uc010ykm.1_Missense_Mutation_p.R453H	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	453	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					GATGTGCACGCGCCTGGATTG	0.642													14	67					0	0	0.002450	0	0	
DNAJC27	51277	broad.mit.edu	37	2	25194767	25194767	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:25194767C>T	uc002rft.1	-	1	58	c.7G>A	c.(7-9)GCC>ACC	p.A3T	DNAJC27_uc010ykn.1_5'Flank|DNAJC27_uc002rfu.1_RNA|DNAJC27_uc010eyg.1_Missense_Mutation_p.A3T|uc002rfv.2_5'Flank	NM_016544	NP_057628	Q9NZQ0	DJC27_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 27	3					protein folding|small GTPase mediated signal transduction		GTP binding|heat shock protein binding|unfolded protein binding			skin(1)	1						GGCATGTTGGCCTCCATGGCC	0.662													3	11					0	0	0.004672	0	0	
CAD	790	broad.mit.edu	37	2	27458503	27458503	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:27458503G>A	uc002rji.2	+	25	4231	c.4069G>A	c.(4069-4071)GTC>ATC	p.V1357I	CAD_uc010eyw.2_Missense_Mutation_p.V1294I	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1357	CPSase B.|CPSase (Carbamoyl-phosphate synthase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	TGAGCATGGCGTCAAGGTGCA	0.512													15	29					0	0	0.002450	0	0	
PPM1G	5496	broad.mit.edu	37	2	27608664	27608664	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:27608664C>T	uc002rkl.2	-	5	466	c.359G>A	c.(358-360)CGA>CAA	p.R120Q	PPM1G_uc002rkm.2_5'UTR	NM_002707	NP_002698	O15355	PPM1G_HUMAN	protein phosphatase 1G	120					cell cycle arrest|protein dephosphorylation	cytoplasm|nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					CTCAGTGGGTCGCCCTGCAAT	0.408													10	52					0	0	0.010729	0	0	
CLIP4	79745	broad.mit.edu	37	2	29404624	29404624	+	Silent	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:29404624C>A	uc002rmv.2	+	16	2222	c.1983C>A	c.(1981-1983)GCC>GCA	p.A661A	CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	661	CAP-Gly 3.									ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TCCGAAGCGCCAAGGGAAAAA	0.527													10	59					3.86212e-05	4.0859e-05	0.008291	1	0	
EHD3	30845	broad.mit.edu	37	2	31489099	31489099	+	Silent	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:31489099G>T	uc002rnu.2	+	6	1745	c.1137G>T	c.(1135-1137)CTG>CTT	p.L379L	EHD3_uc010ymt.1_3'UTR	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	379					blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					GCAAGCTGCTGGAGGTAGTGG	0.582													9	44					0.000274275	0.000286447	0.004482	1	0	
XDH	7498	broad.mit.edu	37	2	31593290	31593290	+	Silent	SNP	G	A	A	rs142197675	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:31593290G>A	uc002rnv.1	-	18	1990	c.1911C>T	c.(1909-1911)TCC>TCT	p.S637S		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	637					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	CATCATCAGCGGAAATGAAAC	0.418													9	32					0	0	0.006214	0	0	
LTBP1	4052	broad.mit.edu	37	2	33572473	33572473	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:33572473A>G	uc002ros.2	+	26	3899	c.3899A>G	c.(3898-3900)GAA>GGA	p.E1300G	LTBP1_uc002rot.2_Missense_Mutation_p.E974G|LTBP1_uc002rou.2_Missense_Mutation_p.E973G|LTBP1_uc002rov.2_Missense_Mutation_p.E920G|LTBP1_uc010ymz.1_Missense_Mutation_p.E931G|LTBP1_uc010yna.1_Missense_Mutation_p.E878G|LTBP1_uc010ynb.1_Missense_Mutation_p.E197G	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1299	EGF-like 14; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GTGTGTGGTGAAGCCTTCTGT	0.527													6	60					0	0	0.001168	0	0	
SLC8A1	6546	broad.mit.edu	37	2	40656427	40656427	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:40656427C>A	uc002rrx.2	-	1	1018	c.994G>T	c.(994-996)GAA>TAA	p.E332*	SLC8A1_uc002rry.2_Nonsense_Mutation_p.E332*|SLC8A1_uc002rrz.2_Nonsense_Mutation_p.E332*|SLC8A1_uc002rsa.2_Nonsense_Mutation_p.E332*|SLC8A1_uc002rsd.3_Nonsense_Mutation_p.E332*|SLC8A1_uc002rsb.1_Nonsense_Mutation_p.E332*|SLC8A1_uc010fan.1_Nonsense_Mutation_p.E332*|SLC8A1_uc002rsc.1_Nonsense_Mutation_p.E332*	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	332	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	TGCTTAAGTTCCTTCAGAATC	0.398													23	116					3.62473e-10	4.0279e-10	0.012319	1	0	
EFEMP1	2202	broad.mit.edu	37	2	56098186	56098186	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:56098186C>T	uc002rzh.2	-	9	1403	c.1073G>A	c.(1072-1074)CGT>CAT	p.R358H	EFEMP1_uc002rzi.2_Missense_Mutation_p.R358H|EFEMP1_uc002rzj.2_Missense_Mutation_p.R358H|EFEMP1_uc010ypc.1_Missense_Mutation_p.R220H	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	358	Mediates interaction with TIMP3.|EGF-like 6; calcium-binding (Potential).				negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TGGATAACAACGGAAGCCGCC	0.393													12	44					0	0	0.001855	0	0	
USP34	9736	broad.mit.edu	37	2	61433932	61433932	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:61433932C>T	uc002sbe.2	-	71	9031	c.9009G>A	c.(9007-9009)TCG>TCA	p.S3003S	USP34_uc002sbd.2_5'Flank	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	3003					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ACTTCAAAACCGAAAGAAATA	0.373													13	26					0	0	0.013537	0	0	
XPO1	7514	broad.mit.edu	37	2	61709583	61709583	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:61709583A>G	uc002sbj.2	-	23	3632	c.2904T>C	c.(2902-2904)GTT>GTC	p.V968V	XPO1_uc010fcl.2_Silent_p.V964V|XPO1_uc010ypn.1_Silent_p.V964V|XPO1_uc002sbk.2_Silent_p.V529V|XPO1_uc002sbg.2_Silent_p.V165V|XPO1_uc002sbh.2_Silent_p.V615V	NM_003400	NP_003391	O14980	XPO1_HUMAN	exportin 1	968					intracellular protein transport|mitotic prometaphase|mRNA metabolic process|mRNA transport|viral genome transport in host cell|viral infectious cycle	annulate lamellae|Cajal body|cytosol|kinetochore|nuclear envelope|nucleolus|ribonucleoprotein complex	protein binding|protein transporter activity|RNA binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			TTTGGTTGTTAACTGGATTTC	0.328													10	52					0	0	0.006214	0	0	
ARHGAP25	9938	broad.mit.edu	37	2	69049474	69049474	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:69049474A>G	uc002seu.2	+	10	1564	c.1200A>G	c.(1198-1200)ACA>ACG	p.T400T	ARHGAP25_uc010fdg.2_Silent_p.T401T|ARHGAP25_uc010yql.1_Silent_p.T361T|ARHGAP25_uc002sew.2_Silent_p.T393T|ARHGAP25_uc002sex.2_Silent_p.T394T|ARHGAP25_uc002sey.2_Silent_p.T127T	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	400					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						TTTTCTAGACAAGCGACTCTG	0.512													13	103					0	0	0.004007	0	0	
AAK1	22848	broad.mit.edu	37	2	69732777	69732777	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:69732777T>C	uc002sfp.2	-	16	2698	c.2193A>G	c.(2191-2193)TCA>TCG	p.S731S	AAK1_uc010fdk.2_Silent_p.S731S|AAK1_uc010yqm.1_Silent_p.S732S	NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	731						coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						AACTCTCAGCTGAGCCTCCAA	0.483													5	25					0	0	0.001168	0	0	
ZNF638	27332	broad.mit.edu	37	2	71576635	71576635	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:71576635G>A	uc002shx.2	+	2	870	c.551G>A	c.(550-552)CGC>CAC	p.R184H	ZNF638_uc010fec.2_Missense_Mutation_p.R290H|ZNF638_uc010yqw.1_Intron|ZNF638_uc002shw.2_Missense_Mutation_p.R184H|ZNF638_uc002shy.2_Missense_Mutation_p.R184H|ZNF638_uc002shz.2_Missense_Mutation_p.R184H|ZNF638_uc002sia.2_Missense_Mutation_p.R184H|ZNF638_uc002sib.1_Missense_Mutation_p.R184H	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	184					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AAAATGGGGCGCCGATTACCT	0.373													9	45					0	0	0.004482	0	0	
FAM176A	84141	broad.mit.edu	37	2	75720679	75720679	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:75720679G>A	uc002sni.2	-	4	620	c.142C>T	c.(142-144)CTG>TTG	p.L48L	FAM176A_uc002snj.1_Silent_p.L35L|FAM176A_uc002snk.1_Silent_p.L48L	NM_001135032	NP_001128504	Q9H8M9	F176A_HUMAN	family with sequence similarity 176, member A	48	Necessary for the localization and biological activity.|Helical; (Potential).				apoptosis|autophagy	endoplasmic reticulum membrane|integral to membrane|lysosomal membrane|plasma membrane					0						GCCAGGGTCAGCACCAGCCCG	0.552													4	13					0	0	0.009096	0	0	
LRRTM4	80059	broad.mit.edu	37	2	77746720	77746720	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:77746720A>C	uc002snr.2	-	3	690	c.275T>G	c.(274-276)CTT>CGT	p.L92R	LRRTM4_uc002snq.2_Missense_Mutation_p.L92R|LRRTM4_uc002sns.2_Missense_Mutation_p.L92R|LRRTM4_uc002snt.2_Missense_Mutation_p.L93R	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	92	LRR 2.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		ATTATGGTCAAGATAAAGCCA	0.388													12	58					0	0	0.010729	0	0	
CTNNA2	1496	broad.mit.edu	37	2	80101447	80101447	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:80101447T>C	uc010ysh.1	+	5	836	c.831T>C	c.(829-831)GCT>GCC	p.A277A	CTNNA2_uc010yse.1_Silent_p.A277A|CTNNA2_uc010ysf.1_Silent_p.A277A|CTNNA2_uc010ysg.1_Silent_p.A277A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	277					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GCGAGCTGGCTGCGGCTCTTA	0.547													4	39					0	0	0.009096	0	0	
USP39	10713	broad.mit.edu	37	2	85846392	85846392	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:85846392G>A	uc002sqe.2	+	2	354	c.318G>A	c.(316-318)CCG>CCA	p.P106P	USP39_uc002sqb.2_5'UTR|USP39_uc010ysu.1_Silent_p.P28P|USP39_uc010ysv.1_Silent_p.P28P|USP39_uc010fgn.1_Silent_p.P106P|USP39_uc002sqf.2_Silent_p.P106P|USP39_uc002sqg.2_Silent_p.P106P|USP39_uc010fgo.2_Silent_p.P106P	NM_006590	NP_006581	Q53GS9	SNUT2_HUMAN	ubiquitin specific protease 39	106					spliceosome assembly|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)	1						GCCACTGCCCGTACCTGGACA	0.473													6	16					0	0	0.001984	0	0	
FER1L5	90342	broad.mit.edu	37	2	97370099	97370099	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:97370099G>A	uc010fia.2	+	51	6057	c.6057G>A	c.(6055-6057)CCG>CCA	p.P2019P	FER1L5_uc002sws.3_Silent_p.P728P|FER1L5_uc002swt.3_Silent_p.P728P|FER1L5_uc010yus.1_Silent_p.P727P	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	2019						integral to membrane				ovary(1)	1						ATTCAGCTCCGGTGAGTGGCA	0.483													17	118					0	0	0.007413	0	0	
FOXD4L1	200350	broad.mit.edu	37	2	114257389	114257389	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:114257389G>A	uc002tjw.3	+	1	729	c.556G>A	c.(556-558)GCC>ACC	p.A186T		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	186	Fork-head.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CCTGGACCCCGCCTCCCAGGA	0.652													41	202					0	0	0.010771	0	0	
DDX11L2	84771	broad.mit.edu	37	2	114357557	114357557	+	Nonstop_Mutation	SNP	A	G	G	rs115341812	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:114357557A>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													4	17					0	0	0.009096	0	0	
DPP10	57628	broad.mit.edu	37	2	116572537	116572537	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:116572537A>C	uc002tla.1	+	20	2326	c.1869A>C	c.(1867-1869)GAA>GAC	p.E623D	DPP10_uc002tlb.1_Missense_Mutation_p.E573D|DPP10_uc002tlc.1_Missense_Mutation_p.E619D|DPP10_uc002tle.2_Missense_Mutation_p.E627D|DPP10_uc002tlf.1_Missense_Mutation_p.E616D	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	623	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						GTTCAGTAGAAGTAAAGGACC	0.358													18	88					0	0	0.004990	0	0	
SMPD4	55627	broad.mit.edu	37	2	130930247	130930247	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:130930247G>A	uc002tqq.1	-	7	1095	c.575C>T	c.(574-576)CCG>CTG	p.P192L	SMPD4_uc002tqp.1_5'UTR|SMPD4_uc010yzy.1_Intron|SMPD4_uc010yzz.1_Intron|SMPD4_uc002tqr.1_Missense_Mutation_p.P192L|SMPD4_uc002tqs.1_Missense_Mutation_p.P60L|SMPD4_uc002tqt.1_Missense_Mutation_p.P70L|SMPD4_uc010zaa.1_Missense_Mutation_p.P79L|SMPD4_uc010zab.1_Missense_Mutation_p.P119L|SMPD4_uc010zac.1_Intron|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	153					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	atactcGAACGGATCTGAGAG	0.473													13	67					0	0	0.003163	0	0	
NCKAP5	344148	broad.mit.edu	37	2	133541594	133541594	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:133541594C>T	uc002ttp.2	-	14	3164	c.2790G>A	c.(2788-2790)CCG>CCA	p.P930P	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	930	Poly-Pro.						protein binding				0						CTGGAGGGGGCGGAGGGGAAG	0.622													3	15					0	0	0.004672	0	0	
BAZ2B	29994	broad.mit.edu	37	2	160181327	160181327	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:160181327A>G	uc002uao.2	-	36	6700	c.6348T>C	c.(6346-6348)AGT>AGC	p.S2116S	BAZ2B_uc002uap.2_Silent_p.S2080S	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	2116	Bromo.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CTTACTGTCCACTACTTAGTT	0.199													6	22					0	0	0.001168	0	0	
FAP	2191	broad.mit.edu	37	2	163099429	163099429	+	Missense_Mutation	SNP	C	T	T	rs145562225		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:163099429C>T	uc002ucd.2	-	2	288	c.80G>A	c.(79-81)CGC>CAC	p.R27H	FAP_uc010zct.1_Missense_Mutation_p.R27H|FAP_uc010fpd.2_Intron|FAP_uc010fpe.1_Missense_Mutation_p.R27H	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	27	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						TCTTGAAGGGCGTAAGACAAT	0.388													3	15					0	0	0.004672	0	0	
XIRP2	129446	broad.mit.edu	37	2	168105457	168105457	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:168105457A>G	uc002udx.2	+	8	7573	c.7555A>G	c.(7555-7557)ATA>GTA	p.I2519V	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I2344V|XIRP2_uc010fpq.2_Missense_Mutation_p.I2297V|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2344					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TGCGCCTCTTATAAAATCTCA	0.348													10	76					0	0	0.013537	0	0	
LRP2	4036	broad.mit.edu	37	2	169996081	169996081	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:169996081C>T	uc002ues.2	-	73	13452	c.13239G>A	c.(13237-13239)GCG>GCA	p.A4413A		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4413	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CTTTTGAAAACGCCATTTCAC	0.398													15	117					0	0	0.002450	0	0	
FASTKD1	79675	broad.mit.edu	37	2	170416906	170416906	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:170416906T>C	uc002uev.3	-	5	1350	c.962A>G	c.(961-963)GAA>GGA	p.E321G	FASTKD1_uc002uew.3_RNA|FASTKD1_uc002uex.3_Missense_Mutation_p.E307G|FASTKD1_uc002uey.2_Missense_Mutation_p.E284G	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	321					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						CTGTTTCTTTTCTTCAGGTCC	0.383													23	80					0	0	0.002780	0	0	
GORASP2	26003	broad.mit.edu	37	2	171822458	171822458	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:171822458G>A	uc002ugk.2	+	10	1317	c.1177G>A	c.(1177-1179)GCA>ACA	p.A393T	GORASP2_uc002ugj.2_Missense_Mutation_p.A325T|GORASP2_uc010zdl.1_Missense_Mutation_p.A405T|GORASP2_uc010zdm.1_Missense_Mutation_p.A349T|GORASP2_uc002ugl.2_Missense_Mutation_p.A325T|GORASP2_uc002ugm.2_Missense_Mutation_p.A175T	NM_015530	NP_056345	Q9H8Y8	GORS2_HUMAN	golgi reassembly stacking protein 2	393						Golgi membrane				breast(1)|central_nervous_system(1)	2						CACCAGCAACGCACCCTCCGA	0.627													18	57					0	0	0.004990	0	0	
CDCA7	83879	broad.mit.edu	37	2	174229545	174229545	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:174229545G>A	uc002uid.1	+	5	616	c.485G>A	c.(484-486)CGT>CAT	p.R162H	CDCA7_uc002uic.1_Missense_Mutation_p.R241H|CDCA7_uc010zej.1_Missense_Mutation_p.R197H|CDCA7_uc010zek.1_Missense_Mutation_p.R120H	NM_145810	NP_665809	Q9BWT1	CDCA7_HUMAN	cell division cycle associated 7 isoform 2	162	Arg-rich.				regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.116)			CCGCGAAGGCGTACATTCCCG	0.498													16	67					0	0	0.004990	0	0	
RBM45	129831	broad.mit.edu	37	2	178977308	178977308	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:178977308G>A	uc002ulv.2	+	1	127	c.35G>A	c.(34-36)GGC>GAC	p.G12D		NM_152945	NP_694453	Q8IUH3	RBM45_HUMAN	RNA binding motif protein 45	12					cell differentiation|nervous system development	cytoplasm|nucleus	nucleotide binding|RNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.00957)|all cancers(119;0.037)			AGCGGCGGGGGCTTCCGCCCG	0.642											OREG0015102	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	39					0	0	0.000602	0	0	
OSBPL6	114880	broad.mit.edu	37	2	179259111	179259111	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:179259111G>A	uc002ulx.2	+	24	3023	c.2645G>A	c.(2644-2646)CGG>CAG	p.R882Q	OSBPL6_uc002uly.2_Missense_Mutation_p.R907Q|OSBPL6_uc010zfe.1_Missense_Mutation_p.R851Q|OSBPL6_uc002ulz.2_Missense_Mutation_p.R846Q|OSBPL6_uc002uma.2_Missense_Mutation_p.R886Q	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	882					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			CAGAGATCTCGGAGACGATAT	0.358													18	90					0	0	0.007413	0	0	
TTN	7273	broad.mit.edu	37	2	179397429	179397429	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:179397429C>T	uc010zfg.1	-	307	96433	c.96209G>A	c.(96208-96210)CGT>CAT	p.R32070H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R25765H|TTN_uc010zfi.1_Missense_Mutation_p.R25698H|TTN_uc010zfj.1_Missense_Mutation_p.R25573H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32997							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGAAGGTGTACGCCGGCGGGC	0.458													8	47					0	0	0.003080	0	0	
TTN	7273	broad.mit.edu	37	2	179414715	179414715	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:179414715T>C	uc010zfg.1	-	286	84370	c.84146A>G	c.(84145-84147)CAA>CGA	p.Q28049R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Q21744R|TTN_uc010zfi.1_Missense_Mutation_p.Q21677R|TTN_uc010zfj.1_Missense_Mutation_p.Q21552R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28976							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAAAGTACCTTGTACTTTCAC	0.353													5	38					0	0	0.000602	0	0	
TTN	7273	broad.mit.edu	37	2	179590652	179590652	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:179590652C>T	uc010zfg.1	-	67	16889	c.16665G>A	c.(16663-16665)CGG>CGA	p.R5555R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.R2216R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6482							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCTGAGTTGCCGCTTGTCTT	0.423													6	24					0	0	0.001168	0	0	
ITGA4	3676	broad.mit.edu	37	2	182374394	182374394	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:182374394C>T	uc002unu.2	+	16	2468	c.1705C>T	c.(1705-1707)CGG>TGG	p.R569W	ITGA4_uc010frj.1_Missense_Mutation_p.R51W	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	569	Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	GAAAGATGTGCGGGACATCCT	0.398													12	50					0	0	0.010729	0	0	
NCKAP1	10787	broad.mit.edu	37	2	183860434	183860434	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:183860434C>T	uc002upc.2	-	7	1138	c.736G>A	c.(736-738)GAC>AAC	p.D246N	NCKAP1_uc002upb.2_Missense_Mutation_p.D252N	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	246					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			CATACAGTGTCGGACTGTGCT	0.368													9	45					0	0	0.008291	0	0	
COL5A2	1290	broad.mit.edu	37	2	189927977	189927977	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:189927977C>T	uc002uqk.2	-	27	2065	c.1790G>A	c.(1789-1791)GGC>GAC	p.G597D	COL5A2_uc010frx.2_Missense_Mutation_p.G173D	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	597					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			ACCTGGACGGCCATCTTCCCC	0.507													10	62					0	0	0.008291	0	0	
ANKRD44	91526	broad.mit.edu	37	2	197986194	197986194	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:197986194G>A	uc002uuc.2	-	8	935	c.768C>T	c.(766-768)AAC>AAT	p.N256N	ANKRD44_uc002utz.3_Translation_Start_Site|ANKRD44_uc002uua.1_Silent_p.N231N|ANKRD44_uc002uub.2_Silent_p.N256N|ANKRD44_uc010zgw.1_Silent_p.N184N	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	256	ANK 8.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			CAATCAACTCGTTAACCACAG	0.463													4	40					0	0	0.009096	0	0	
RFTN2	130132	broad.mit.edu	37	2	198540105	198540105	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:198540105C>T	uc002uuo.3	-	1	480	c.78G>A	c.(76-78)CCG>CCA	p.P26P		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	26						plasma membrane					0						TTTCCACTTGCGGTCTCTTCA	0.373													12	110					0	0	0.001855	0	0	
KCTD18	130535	broad.mit.edu	37	2	201371662	201371662	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:201371662C>T	uc002uvs.2	-	2	595	c.78G>A	c.(76-78)CGG>CGA	p.R26R	KCTD18_uc002uvt.2_Silent_p.R26R|KCTD18_uc002uvu.1_Silent_p.R26R	NM_152387	NP_689600	Q6PI47	KCD18_HUMAN	potassium channel tetramerization domain	26	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1						AGGACTCCCGCCGGGCTGTGT	0.502													9	28					0	0	0.006214	0	0	
BMPR2	659	broad.mit.edu	37	2	203383560	203383560	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:203383560C>T	uc002uzf.3	+	6	1785	c.637C>T	c.(637-639)CGA>TGA	p.R213*	BMPR2_uc010ftr.2_Nonsense_Mutation_p.R213*	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	213	ATP.|Protein kinase.|Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						TGGCCGAGGTCGATATGGAGC	0.343													5	42					0	0	0.000602	0	0	
FAM117B	150864	broad.mit.edu	37	2	203622015	203622015	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:203622015A>C	uc010zhx.1	+	6	1194	c.1184A>C	c.(1183-1185)CAG>CCG	p.Q395P		NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	395										ovary(1)	1						ATTGACACACAGACGCCTGGT	0.542													12	44					0	0	0.010729	0	0	
CTLA4	1493	broad.mit.edu	37	2	204735367	204735367	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:204735367T>A	uc002vak.1	+	2	325	c.168T>A	c.(166-168)TTT>TTA	p.F56L	CTLA4_uc002val.1_Missense_Mutation_p.F56L|CTLA4_uc010fty.1_Missense_Mutation_p.F56L|CTLA4_uc010ftz.1_Intron	NM_005214	NP_005205	P16410	CTLA4_HUMAN	cytotoxic T-lymphocyte-associated protein 4	56	Ig-like V-type.|Extracellular (Potential).				B cell receptor signaling pathway|immune response|negative regulation of B cell proliferation|negative regulation of regulatory T cell differentiation|positive regulation of apoptosis|response to DNA damage stimulus|T cell costimulation	clathrin-coated endocytic vesicle|external side of plasma membrane|Golgi apparatus|integral to plasma membrane|perinuclear region of cytoplasm					0					Abatacept(DB01281)	TCGCCAGCTTTGTGTGTGAGT	0.577													13	74					0	0	0.013537	0	0	
PARD3B	117583	broad.mit.edu	37	2	206305302	206305302	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:206305302C>T	uc002var.1	+	20	3157	c.2950C>T	c.(2950-2952)CGG>TGG	p.R984W	PARD3B_uc002vao.1_Intron|PARD3B_uc002vap.1_Missense_Mutation_p.R922W|PARD3B_uc002vaq.1_Missense_Mutation_p.R915W	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	984					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TGGTTACCCTCGGGATGGCCA	0.507													18	68					0	0	0.004990	0	0	
MAP2	4133	broad.mit.edu	37	2	210560533	210560533	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:210560533G>A	uc002vde.1	+	7	3887	c.3639G>A	c.(3637-3639)ACG>ACA	p.T1213T	MAP2_uc002vdc.1_Silent_p.T1213T|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.T1209T	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1213					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	TATCCATCACGCCTTCTGATG	0.453													6	26					0	0	0.001168	0	0	
MAP2	4133	broad.mit.edu	37	2	210574923	210574923	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:210574923T>A	uc002vde.1	+	12	5266	c.5018T>A	c.(5017-5019)GTC>GAC	p.V1673D	MAP2_uc002vdd.1_Missense_Mutation_p.V374D|MAP2_uc002vdf.1_Missense_Mutation_p.V317D|MAP2_uc002vdg.1_Missense_Mutation_p.V317D|MAP2_uc002vdh.1_Missense_Mutation_p.V374D|MAP2_uc002vdi.1_Missense_Mutation_p.V1669D	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1673	Tau/MAP 1.				central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CTGAAGAATGTCAAATCCAAA	0.438													4	16					0	0	0.000602	0	0	
RPE	6120	broad.mit.edu	37	2	210882238	210882238	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:210882238G>T	uc002vdn.2	+	5	524	c.519G>T	c.(517-519)GAG>GAT	p.E173D	RPE_uc002vdm.2_Missense_Mutation_p.E173D|RPE_uc002vdo.2_Missense_Mutation_p.E123D|RPE_uc010zjf.1_Intron|RPE_uc002vdp.2_Missense_Mutation_p.E120D|RPE_uc010fup.2_Missense_Mutation_p.E105D|RPE_uc002vdq.2_Missense_Mutation_p.E123D|RPE_uc002vdr.2_Missense_Mutation_p.E88D	NM_199229	NP_954699	Q96AT9	RPE_HUMAN	ribulose-5-phosphate-3-epimerase isoform 1	173					pentose-phosphate shunt	cytosol	metal ion binding|protein homodimerization activity|ribulose-phosphate 3-epimerase activity				0				Epithelial(149;0.00241)|Lung(261;0.041)|all cancers(144;0.0429)|LUSC - Lung squamous cell carcinoma(261;0.0431)		TGGATATAGAGGTCGATGGTG	0.403													8	46					3.86212e-05	4.0859e-05	0.008291	1	0	
SPEG	10290	broad.mit.edu	37	2	220353375	220353375	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:220353375G>A	uc010fwg.2	+	33	8014	c.8014G>A	c.(8014-8016)GTG>ATG	p.V2672M		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2672	Ig-like 9.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CTCCTGTACCGTGGCTGTGGC	0.672													8	32					0	0	0.003080	0	0	
INHA	3623	broad.mit.edu	37	2	220439842	220439842	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:220439842G>A	uc002vmk.1	+	2	839	c.695G>A	c.(694-696)CGC>CAC	p.R232H		NM_002191	NP_002182	P05111	INHA_HUMAN	inhibin alpha subunit precursor	232		Cleavage.		RR->EA: Loss of cleavage.	cell cycle arrest|cell surface receptor linked signaling pathway|cell-cell signaling|erythrocyte differentiation|hemoglobin biosynthetic process|induction of apoptosis|negative regulation of B cell differentiation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|regulation of cell proliferation|response to external stimulus|skeletal system development	inhibin A complex|inhibin-betaglycan-ActRII complex	cytokine activity|growth factor activity|hormone activity|signal transducer activity			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;4.58e-07)|all cancers(144;4.31e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		AGAGCCCGACGCTCAACTCCC	0.672													4	38					0	0	0.009096	0	0	
SLC4A3	6508	broad.mit.edu	37	2	220494917	220494917	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:220494917G>A	uc002vmp.3	+	6	923	c.654G>A	c.(652-654)GAG>GAA	p.E218E	SLC4A3_uc002vmn.2_Silent_p.E245E|SLC4A3_uc002vmo.3_Silent_p.E245E|SLC4A3_uc010fwm.2_5'UTR|SLC4A3_uc010fwn.1_5'Flank	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	218	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCGCTGGGGAGAAAAGCCGGC	0.692													7	19					0	0	0.001984	0	0	
CUL3	8452	broad.mit.edu	37	2	225376167	225376167	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:225376167C>T	uc002vny.2	-	6	1171	c.787G>A	c.(787-789)GTG>ATG	p.V263M	CUL3_uc010zls.1_Missense_Mutation_p.V197M|CUL3_uc010fwy.1_Missense_Mutation_p.V269M	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	263					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CTTTCAACCACCTTTACAATT	0.358													21	117					0	0	0.010504	0	0	
SP110	3431	broad.mit.edu	37	2	231042288	231042288	+	Missense_Mutation	SNP	C	T	T	rs140285393	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:231042288C>T	uc002vqh.3	-	14	1796	c.1556G>A	c.(1555-1557)CGT>CAT	p.R519H	SP110_uc002vqg.3_Missense_Mutation_p.R519H|SP110_uc002vqi.3_Missense_Mutation_p.R519H|SP110_uc010fxk.2_Missense_Mutation_p.R517H|SP110_uc010fxj.2_Missense_Mutation_p.R162H	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	519	SAND.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		TCCTTCACAACGTATATTCCG	0.423													42	232					0	0	0.010771	0	0	
GIGYF2	26058	broad.mit.edu	37	2	233715062	233715062	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:233715062C>T	uc002vti.3	+	30	4112	c.3775C>T	c.(3775-3777)CAG>TAG	p.Q1259*	GIGYF2_uc002vtj.3_Nonsense_Mutation_p.Q1280*|GIGYF2_uc002vtk.3_Nonsense_Mutation_p.Q1259*|GIGYF2_uc002vth.3_Nonsense_Mutation_p.Q1253*|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc002vtq.3_Nonsense_Mutation_p.Q592*	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	1259					cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		TGAGGCTGTGCAGAGTGGCAA	0.468													11	52					0	0	0.008291	0	0	
ANKMY1	51281	broad.mit.edu	37	2	241463633	241463633	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:241463633C>T	uc002vyz.1	-	7	1463	c.1234G>A	c.(1234-1236)GGC>AGC	p.G412S	ANKMY1_uc002vza.1_Missense_Mutation_p.G271S|ANKMY1_uc010fzd.1_Missense_Mutation_p.G501S|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Missense_Mutation_p.G271S|ANKMY1_uc002vzd.1_Missense_Mutation_p.G271S|ANKMY1_uc010fze.1_Missense_Mutation_p.G81S|ANKMY1_uc002vze.2_Missense_Mutation_p.G173S	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	412							zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		TGGAAGTGGCCGCCCTCGTGG	0.637													15	43					0	0	0.004990	0	0	
GPR35	2859	broad.mit.edu	37	2	241570284	241570284	+	Silent	SNP	C	T	T	rs142918765	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:241570284C>T	uc002vzs.1	+	1	1490	c.915C>T	c.(913-915)TGC>TGT	p.C305C	GPR35_uc010fzh.1_Silent_p.C336C|GPR35_uc010fzi.1_Silent_p.C336C	NM_005301	NP_005292	Q9HC97	GPR35_HUMAN	G protein-coupled receptor 35	305	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(2)|pancreas(1)	3		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)		ACTCTCTGTGCGTGACCCTCG	0.642													24	88					0	0	0.003330	0	0	
PASK	23178	broad.mit.edu	37	2	242066674	242066674	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:242066674T>C	uc002wao.1	-	10	1748	c.1656A>G	c.(1654-1656)CCA>CCG	p.P552P	PASK_uc010zol.1_Silent_p.P366P|PASK_uc010zom.1_Silent_p.P517P|PASK_uc010fzl.1_Silent_p.P552P|PASK_uc010zon.1_Silent_p.P333P|PASK_uc002wap.2_Silent_p.P95P|PASK_uc002waq.2_Silent_p.P552P	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	552					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CAGCTGGGACTGGAGCTTCAG	0.577													20	117					0	0	0.008871	0	0	
GAL3ST2	64090	broad.mit.edu	37	2	242741267	242741267	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:242741267G>A	uc002wcj.1	+	3	322	c.191G>A	c.(190-192)AGC>AAC	p.S64N		NM_022134	NP_071417	Q9H3Q3	G3ST2_HUMAN	galactose-3-O-sulfotransferase 2	64	Lumenal (Potential).				biosynthetic process	Golgi cisterna membrane|integral to membrane	galactosylceramide sulfotransferase activity				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		AAGACGGCCAGCAGCACGGTG	0.667													8	47					0	0	0.003080	0	0	
LOC728323	728323	broad.mit.edu	37	2	243056854	243056854	+	RNA	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr2:243056854A>G	uc010zpd.1	+	3		c.315A>G			LOC728323_uc010zpe.1_RNA|LOC728323_uc010zpf.1_RNA|LOC728323_uc010zpg.1_Intron	NR_024437				Homo sapiens cDNA FLJ60027 complete cds, moderately similar to F-box only protein 25.												0						ATCCAAAAAAAGAAAAAGGAC	0.244													5	39					0	0	0.001984	0	0	
C20orf54	113278	broad.mit.edu	37	20	744159	744159	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:744159G>A	uc002wed.3	-	3	1395	c.1056C>T	c.(1054-1056)TCC>TCT	p.S352S	C20orf54_uc002wee.2_Silent_p.S352S	NM_033409	NP_212134	Q9NQ40	RFT2_HUMAN	hypothetical protein LOC113278 precursor	352	Helical; (Potential).				sensory perception of sound	integral to plasma membrane	riboflavin transporter activity			ovary(2)	2						GCAGGAACATGGAGACCAACG	0.567													6	35					0	0	0.001168	0	0	
SNPH	9751	broad.mit.edu	37	20	1285978	1285978	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:1285978G>A	uc002wes.2	+	6	1001	c.765G>A	c.(763-765)ACG>ACA	p.T255T	SNPH_uc002wet.2_Silent_p.T299T	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	255					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						TGAGCCGGACGGACGCGCTGG	0.682													4	33					0	0	0.009096	0	0	
MCM8	84515	broad.mit.edu	37	20	5974312	5974312	+	Missense_Mutation	SNP	C	T	T	rs147649536		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:5974312C>T	uc002wmi.2	+	18	2778	c.2401C>T	c.(2401-2403)CGG>TGG	p.R801W	MCM8_uc002wmj.2_Missense_Mutation_p.R785W|MCM8_uc002wmk.2_Missense_Mutation_p.R841W|MCM8_uc002wml.2_Missense_Mutation_p.R801W|MCM8_uc010gbp.2_Missense_Mutation_p.R754W|MCM8_uc002wmm.2_Missense_Mutation_p.R339W	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	801					cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						TCATCAACTTCGGCAGATTGC	0.318													6	47					0	0	0.001168	0	0	
CRLS1	54675	broad.mit.edu	37	20	6012658	6012658	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:6012658C>T	uc002wmn.3	+	5	815	c.661C>T	c.(661-663)CGA>TGA	p.R221*	CRLS1_uc010gbq.2_RNA|CRLS1_uc010gbr.2_Nonsense_Mutation_p.R122*	NM_019095	NP_061968	Q9UJA2	CRLS1_HUMAN	cardiolipin synthase 1 isoform 1	221					phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphotransferase activity, for other substituted phosphate groups				0						CCTCTGCCAGCGAACACTTGC	0.303													9	94					0	0	0.004482	0	0	
RRBP1	6238	broad.mit.edu	37	20	17641004	17641004	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:17641004G>A	uc010zrq.1	-	3	503	c.149C>T	c.(148-150)GCG>GTG	p.A50V	RRBP1_uc002wpu.2_5'Flank|RRBP1_uc002wpv.1_Missense_Mutation_p.A50V|RRBP1_uc002wpw.1_Missense_Mutation_p.A50V|RRBP1_uc010gcl.1_Intron|RRBP1_uc010zrr.1_Missense_Mutation_p.A50V			Q9P2E9	RRBP1_HUMAN	SubName: Full=RRBP1 protein; Flags: Fragment;	50	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						GTGAGTTTTCGCCATCTCCTT	0.333													9	25					0	0	0.004482	0	0	
CD93	22918	broad.mit.edu	37	20	23066077	23066077	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:23066077G>A	uc002wsv.2	-	1	901	c.753C>T	c.(751-753)GGC>GGT	p.G251G		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	251	Extracellular (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GGCCCGAGCTGCCCCAGTCGA	0.592													24	101					0	0	0.003330	0	0	
GZF1	64412	broad.mit.edu	37	20	23350271	23350271	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:23350271A>G	uc010gdb.2	+	6	1852	c.1678A>G	c.(1678-1680)AAC>GAC	p.N560D	GZF1_uc002wsy.2_Missense_Mutation_p.N560D|GZF1_uc010zsq.1_Missense_Mutation_p.N84D|GZF1_uc010zsr.1_Missense_Mutation_p.N69D|GZF1_uc002wsz.2_Missense_Mutation_p.N560D	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	560	C2H2-type 9.				transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					CACCCAGCTCAACGCCCTCCA	0.632													18	87					0	0	0.010504	0	0	
NINL	22981	broad.mit.edu	37	20	25507059	25507059	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:25507059G>A	uc002wux.1	-	2	239	c.165C>T	c.(163-165)AAC>AAT	p.N55N	NINL_uc010gdn.1_Silent_p.N55N|NINL_uc010gdo.1_Translation_Start_Site|NINL_uc010ztf.1_Silent_p.N71N	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	55	EF-hand 2.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CGAAATGGTCGTTTCCGAGAA	0.532													18	135					0	0	0.007413	0	0	
HM13	81502	broad.mit.edu	37	20	30132838	30132838	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:30132838G>T	uc002wwe.2	+	4	568	c.454G>T	c.(454-456)GAG>TAG	p.E152*	HM13_uc002wwc.2_Nonsense_Mutation_p.E152*|HM13_uc002wwd.2_Nonsense_Mutation_p.E152*|HM13_uc002wwf.2_5'Flank|HM13_uc010gdu.2_5'Flank|PSIMCT-1_uc010gdt.2_5'Flank	NM_030789	NP_110416	Q8TCT9	HM13_HUMAN	minor histocompatibility antigen 13 isoform 1	152	Cytoplasmic (Potential).				membrane protein proteolysis	cell surface|endoplasmic reticulum membrane|integral to membrane|plasma membrane	aspartic-type endopeptidase activity|protein binding			breast(1)	1	all_cancers(5;3.44e-05)|Lung NSC(7;4.38e-06)|all_lung(7;7.65e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		all cancers(5;0.000479)|Colorectal(19;0.00202)|COAD - Colon adenocarcinoma(19;0.0264)			AAACAAGGAAGGTCAGTGCTA	0.453													4	42					0.00909568	0.00928865	0.009096	1	0	
CBFA2T2	9139	broad.mit.edu	37	20	32232206	32232206	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:32232206C>T	uc002wzg.1	+	12	2106	c.1569C>T	c.(1567-1569)ATC>ATT	p.I523I	CBFA2T2_uc010zug.1_Silent_p.I297I|CBFA2T2_uc002wze.1_Silent_p.I514I|CBFA2T2_uc002wzf.1_RNA|CBFA2T2_uc002wzh.1_Silent_p.I494I|CBFA2T2_uc002wzi.1_RNA|CBFA2T2_uc002wzj.1_RNA|CBFA2T2_uc002wzk.1_Silent_p.I71I	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	523	MYND-type.					nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						GCTGCAATATCGCGCGATACT	0.612													9	61					0	0	0.004482	0	0	
RALY	22913	broad.mit.edu	37	20	32663747	32663747	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:32663747C>T	uc002xab.2	+	6	743	c.445C>T	c.(445-447)CGG>TGG	p.R149W	RALY_uc002xac.2_Missense_Mutation_p.R133W|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Missense_Mutation_p.R149W	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	149						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						GAAGCGACCCCGGGTCACAGT	0.627													12	29					0	0	0.010729	0	0	
RALGAPB	57148	broad.mit.edu	37	20	37203485	37203485	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:37203485C>T	uc002xiw.2	+	30	4617	c.4360C>T	c.(4360-4362)CCC>TCC	p.P1454S	RALGAPB_uc002xix.2_Missense_Mutation_p.P1451S|RALGAPB_uc002xiy.1_Intron|RALGAPB_uc002xiz.2_Missense_Mutation_p.P1233S	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	1454					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						CTCCTACAGTCCCCCCCATGT	0.428													19	64					0	0	0.006122	0	0	
PTPRT	11122	broad.mit.edu	37	20	40980779	40980779	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:40980779G>A	uc002xkg.2	-	10	1891	c.1707C>T	c.(1705-1707)AGC>AGT	p.S569S	PTPRT_uc010ggj.2_Silent_p.S569S	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	569	Extracellular (Potential).|Fibronectin type-III 3.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CCTTTGCTGTGCTGGCCTTGA	0.522													13	57					0	0	0.003163	0	0	
C20orf111	51526	broad.mit.edu	37	20	42825844	42825844	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:42825844C>T	uc002xlk.2	-	4	864	c.727G>A	c.(727-729)GCC>ACC	p.A243T		NM_016470	NP_057554	Q9NX31	CT111_HUMAN	oxidative stress responsive 1	243											0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			AGAGTTCTGGCGTGCAGCGAC	0.522													18	55					0	0	0.007413	0	0	
RBPJL	11317	broad.mit.edu	37	20	43938299	43938299	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:43938299A>C	uc002xns.2	+	3	296	c.224A>C	c.(223-225)AAG>ACG	p.K75T	MATN4_uc002xnn.2_5'Flank|MATN4_uc002xno.2_5'Flank|MATN4_uc002xnp.2_5'Flank|MATN4_uc002xnr.1_5'Flank|RBPJL_uc002xnt.2_Missense_Mutation_p.K75T	NM_014276	NP_055091	Q9UBG7	RBPJL_HUMAN	recombining binding protein L	75					signal transduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CTGCATGCCAAGGTGGCCCAG	0.602													5	19					0	0	0.000602	0	0	
ZNF334	55713	broad.mit.edu	37	20	45130815	45130815	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:45130815C>T	uc002xsc.2	-	5	1347	c.1163G>A	c.(1162-1164)TGT>TAT	p.C388Y	ZNF334_uc002xsa.2_Missense_Mutation_p.C411Y|ZNF334_uc002xsb.2_Missense_Mutation_p.C350Y|ZNF334_uc002xsd.2_Missense_Mutation_p.C350Y|ZNF334_uc010ghl.2_Missense_Mutation_p.C387Y	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	388	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				GGCTGACTGACAGAAGAAGGT	0.418													22	111					0	0	0.014323	0	0	
ZNF334	55713	broad.mit.edu	37	20	45131154	45131154	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:45131154C>T	uc002xsc.2	-	5	1008	c.824G>A	c.(823-825)CGT>CAT	p.R275H	ZNF334_uc002xsa.2_Missense_Mutation_p.R298H|ZNF334_uc002xsb.2_Missense_Mutation_p.R237H|ZNF334_uc002xsd.2_Missense_Mutation_p.R237H|ZNF334_uc010ghl.2_Missense_Mutation_p.R274H	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	275	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				TGTCTTCACACGAAAAGTTTT	0.413													17	95					0	0	0.004990	0	0	
MC3R	4159	broad.mit.edu	37	20	54824345	54824345	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:54824345C>T	uc002xxb.2	+	1	558	c.446C>T	c.(445-447)GCG>GTG	p.A149V		NM_019888	NP_063941	P41968	MC3R_HUMAN	melanocortin 3 receptor	186	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding			ovary(2)|breast(2)	4			Colorectal(105;0.202)			ATCTTTTACGCGCTCCGCTAC	0.582													14	69					0	0	0.001855	0	0	
LAMA5	3911	broad.mit.edu	37	20	60890152	60890152	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:60890152C>A	uc002ycq.2	-	59	8046	c.7979G>T	c.(7978-7980)TGG>TTG	p.W2660L		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2660	Potential.|Domain II and I.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTGGCCCTGCCACCGCTCCAC	0.677													8	21					5.4927e-09	6.04654e-09	0.004482	1	0	
DIDO1	11083	broad.mit.edu	37	20	61513091	61513091	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:61513091C>T	uc002ydr.1	-	16	4481	c.4217G>A	c.(4216-4218)CGG>CAG	p.R1406Q	DIDO1_uc002yds.1_Missense_Mutation_p.R1406Q	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1406					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CTCGTGGCGCCGCCCTCGCTC	0.607													21	75					0	0	0.008871	0	0	
C20orf135	140701	broad.mit.edu	37	20	62493649	62493649	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:62493649G>A	uc002ygx.1	+	1	1084	c.756G>A	c.(754-756)ACG>ACA	p.T252T	TPD52L2_uc002ygy.2_5'Flank|TPD52L2_uc002ygz.2_5'Flank|TPD52L2_uc002yha.2_5'Flank|TPD52L2_uc002yhb.2_5'Flank|TPD52L2_uc002yhc.2_5'Flank|TPD52L2_uc002yhd.2_5'Flank|TPD52L2_uc011abk.1_5'Flank|TPD52L2_uc011abl.1_5'Flank	NM_080622	NP_542189	Q9H3Z7	ABHGB_HUMAN	hypothetical protein LOC140701	252							hydrolase activity				0	all_cancers(38;1.77e-12)|all_epithelial(29;3.12e-14)|Lung NSC(23;5.92e-10)|all_lung(23;2.08e-09)					GCGGCTTCACGGCCACCTGGG	0.672													4	12					0	0	0.009096	0	0	
PCMTD2	55251	broad.mit.edu	37	20	62904787	62904787	+	Missense_Mutation	SNP	A	G	G	rs149434467	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr20:62904787A>G	uc002yil.3	+	6	1120	c.920A>G	c.(919-921)GAT>GGT	p.D307G	PCMTD2_uc002yim.3_Missense_Mutation_p.D280G	NM_018257	NP_060727	Q9NV79	PCMD2_HUMAN	protein-L-isoaspartate (D-aspartate)	307						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					AACCCCTCAGATGACAACAGC	0.522													8	85					0	0	0.003080	0	0	
TMPRSS15	5651	broad.mit.edu	37	21	19666643	19666643	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:19666643G>A	uc002ykw.2	-	21	2461	c.2430C>T	c.(2428-2430)TGC>TGT	p.C810C		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	810	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						GAGATGCGCCGCAGAGCAGTC	0.567													17	72					0	0	0.006122	0	0	
TMPRSS15	5651	broad.mit.edu	37	21	19737468	19737468	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:19737468C>T	uc002ykw.2	-	7	793	c.762G>A	c.(760-762)CAG>CAA	p.Q254Q		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	254	Extracellular (Potential).|CUB 1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						GTATGATCCACTGGCAGACAA	0.363													9	72					0	0	0.008291	0	0	
NCAM2	4685	broad.mit.edu	37	21	22881276	22881276	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:22881276C>T	uc002yld.1	+	16	2431	c.2182C>T	c.(2182-2184)CAA>TAA	p.Q728*	NCAM2_uc011acb.1_Nonsense_Mutation_p.Q586*	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	728	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		CTTTATTCGGCAATGTGGGTT	0.468													5	55					0	0	0.000602	0	0	
APP	351	broad.mit.edu	37	21	27327992	27327992	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:27327992G>A	uc002ylz.2	-	12	1736	c.1536C>T	c.(1534-1536)TTC>TTT	p.F512F	APP_uc011acg.1_Silent_p.F20F|APP_uc010glk.2_Silent_p.F488F|APP_uc002yma.2_Silent_p.F493F|APP_uc011ach.1_Silent_p.F456F|APP_uc002ymb.2_Silent_p.F437F|APP_uc010glj.2_Silent_p.F381F|APP_uc011aci.1_Silent_p.F402F	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	512	Heparin-binding.|Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				GCACATGCTCGAAATGCTTTA	0.493													14	60					0	0	0.001855	0	0	
RWDD2B	10069	broad.mit.edu	37	21	30380391	30380391	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:30380391G>A	uc002yms.2	-	4	503	c.416C>T	c.(415-417)GCA>GTA	p.A139V	RWDD2B_uc002ymt.2_Missense_Mutation_p.A110V|RWDD2B_uc002ymu.2_RNA|RWDD2B_uc002ymv.2_Missense_Mutation_p.A59V	NM_016940	NP_058636	P57060	RWD2B_HUMAN	RWD domain containing 2B	139	RWD.										0						TTGCAGGAATGCAGTCAGATC	0.393													15	53					0	0	0.003163	0	0	
SON	6651	broad.mit.edu	37	21	34923165	34923165	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:34923165C>T	uc002yse.1	+	3	1677	c.1628C>T	c.(1627-1629)ACG>ATG	p.T543M	SON_uc002ysb.1_Missense_Mutation_p.T543M|SON_uc002ysc.2_Missense_Mutation_p.T543M|SON_uc002ysd.2_Translation_Start_Site|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	543					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						CCTGAGGCAACGATGGTGCTG	0.632													21	99					0	0	0.012319	0	0	
DOPEY2	9980	broad.mit.edu	37	21	37617398	37617398	+	Silent	SNP	C	T	T	rs145948712		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:37617398C>T	uc002yvg.2	+	19	3199	c.3120C>T	c.(3118-3120)TGC>TGT	p.C1040C	DOPEY2_uc011aeb.1_Silent_p.C989C|DOPEY2_uc002yvh.2_5'UTR	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	1040					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						GAGAGGCATGCGCAGTGCCCG	0.512													3	23					0	0	0.004672	0	0	
HLCS	3141	broad.mit.edu	37	21	38269298	38269298	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:38269298G>T	uc010gnb.2	-	6	2514	c.1313C>A	c.(1312-1314)CCT>CAT	p.P438H	HLCS_uc002yvs.2_Missense_Mutation_p.P438H	NM_000411	NP_000402	P50747	BPL1_HUMAN	holocarboxylase synthetase	438					cell proliferation|histone biotinylation|response to biotin	chromatin|cytosol|mitochondrion|nuclear lamina|nuclear matrix	ATP binding|biotin binding|biotin-[acetyl-CoA-carboxylase] ligase activity|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity|enzyme binding			ovary(2)|breast(1)|kidney(1)|liver(1)	5		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	GGTCACCACAGGTATACAAGA	0.423													17	98					6.94344e-10	7.70766e-10	0.006122	1	0	
DSCAM	1826	broad.mit.edu	37	21	41385265	41385265	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:41385265T>C	uc002yyq.1	-	33	6187	c.5735A>G	c.(5734-5736)AAC>AGC	p.N1912S	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1912	Cytoplasmic (Potential).			HRPGDLIHLPPYLRMDFLLNRGGPGTSRDLSLGQACLEPQK SRTLKRPTVLEPIPMEAASSASSTREGQSWQPGAVATLPQR EGAELGQAAKMSSSQESLLDSRGHLKGNNPYAKSYTLV -> IGQVTSYICLHTLEWTFC (in Ref. 1; AAC17966).	cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				ACCACCTCGGTTTAACAAAAA	0.517													5	45					0	0	0.001168	0	0	
U2AF1	7307	broad.mit.edu	37	21	44515560	44515560	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:44515560G>A	uc002zda.1	-	5	420	c.336C>T	c.(334-336)AAC>AAT	p.N112N	U2AF1_uc002zcy.1_Silent_p.N39N|U2AF1_uc002zcz.1_Silent_p.N39N|U2AF1_uc002zdb.1_Silent_p.N112N|U2AF1_uc010gpi.1_Silent_p.N112N	NM_001025203	NP_001020374	Q01081	U2AF1_HUMAN	U2 small nuclear RNA auxillary factor 1 isoform	112	RRM.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	Cajal body|catalytic step 2 spliceosome|nuclear speck	nucleotide binding|RNA binding|zinc ion binding				0						TGACGTACACGTTCCCCACCA	0.587													18	89					0	0	0.006122	0	0	
PWP2	5822	broad.mit.edu	37	21	45546795	45546795	+	Missense_Mutation	SNP	C	T	T	rs138442552		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:45546795C>T	uc002zeb.2	+	17	2179	c.2089C>T	c.(2089-2091)CGG>TGG	p.R697W		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	697						cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		CATGAGTTCTCGGCACTTCAA	0.567													26	110					0	0	0.006320	0	0	
ITGB2	3689	broad.mit.edu	37	21	46308785	46308785	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr21:46308785C>T	uc002zgd.2	-	13	1947	c.1903G>A	c.(1903-1905)GAA>AAA	p.E635K	ITGB2_uc002zge.2_Missense_Mutation_p.E635K|ITGB2_uc002zgf.3_Missense_Mutation_p.E635K|ITGB2_uc011afl.1_Missense_Mutation_p.E557K|ITGB2_uc010gpw.2_Missense_Mutation_p.E578K|ITGB2_uc002zgg.2_Missense_Mutation_p.E635K	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	635	Extracellular (Potential).				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	GGGCCCTTTTCGAACTTCAGG	0.672													9	26					0	0	0.008291	0	0	
GAB4	128954	broad.mit.edu	37	22	17488876	17488876	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:17488876G>A	uc002zlw.2	-	1	237	c.129C>T	c.(127-129)AGC>AGT	p.S43S	GAB4_uc010gqs.1_Silent_p.S43S	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	43	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				TCAGCCAGCCGCTGTACAGCA	0.677													3	9					0	0	0.004672	0	0	
IL17RA	23765	broad.mit.edu	37	22	17590340	17590340	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:17590340T>C	uc002zly.2	+	13	2364	c.2231T>C	c.(2230-2232)GTG>GCG	p.V744A	IL17RA_uc010gqt.2_Missense_Mutation_p.V692A	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	744	Cytoplasmic (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		CCAGAGGACGTGAGGGAGCAC	0.652													4	27					0	0	0.009096	0	0	
PPIL2	23759	broad.mit.edu	37	22	22024875	22024875	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:22024875C>T	uc010gtj.1	+	3	219	c.103C>T	c.(103-105)CGT>TGT	p.R35C	PPIL2_uc002zvh.3_Missense_Mutation_p.R35C|PPIL2_uc002zvi.3_Missense_Mutation_p.R35C|PPIL2_uc002zvg.3_Missense_Mutation_p.R35C|PPIL2_uc011aij.1_Missense_Mutation_p.R35C	NM_148175	NP_680480	Q13356	PPIL2_HUMAN	peptidylprolyl isomerase-like 2 isoform a	35					blood coagulation|leukocyte migration|protein folding|protein polyubiquitination	Golgi lumen|nucleus|ubiquitin ligase complex	peptidyl-prolyl cis-trans isomerase activity|ubiquitin-ubiquitin ligase activity			ovary(2)	2	Colorectal(54;0.105)					AACAAATTTTCGTCGTTTACC	0.368													17	76					0	0	0.004990	0	0	
LOC96610	96610	broad.mit.edu	37	22	22724348	22724348	+	RNA	SNP	C	T	T	rs9619971		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:22724348C>T	uc011aim.1	+	43		c.4621C>T								Parts of antibodies, mostly variable regions.												0						GACACCTGCCCGGTTCTCAGG	0.557													9	29					0	0	0.006214	0	0	
PRAME	23532	broad.mit.edu	37	22	22892556	22892556	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:22892556A>G	uc002zwf.2	-	4	701	c.545T>C	c.(544-546)TTC>TCC	p.F182S	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Missense_Mutation_p.F166S|PRAME_uc010gtr.2_Missense_Mutation_p.F182S|PRAME_uc002zwg.2_Missense_Mutation_p.F182S|PRAME_uc002zwh.2_Missense_Mutation_p.F182S|PRAME_uc002zwi.2_Missense_Mutation_p.F182S|PRAME_uc002zwj.2_Missense_Mutation_p.F182S|PRAME_uc002zwk.2_Missense_Mutation_p.F182S	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	182					apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		TTCCTTGAGGAACAGGTCTAC	0.473													16	89					0	0	0.006122	0	0	
LOC96610	96610	broad.mit.edu	37	22	23101454	23101454	+	RNA	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:23101454G>T	uc011aim.1	+	210		c.10883G>T								Parts of antibodies, mostly variable regions.												0						CTGGACAGTCGATCACCATCT	0.557													14	211					1.45105e-14	1.62955e-14	0.006122	1	0	
GGT1	2678	broad.mit.edu	37	22	25010758	25010758	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:25010758C>T	uc003aan.1	+	6	667	c.180C>T	c.(178-180)GAC>GAT	p.D60D	GGT1_uc003aas.1_Silent_p.D60D|GGT1_uc003aat.1_Silent_p.D60D|GGT1_uc003aau.1_Silent_p.D60D|GGT1_uc003aav.1_Silent_p.D60D|GGT1_uc003aaw.1_Silent_p.D60D|GGT1_uc003aax.1_Silent_p.D60D	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor	60	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	CACTGCGGGACGGTGGCTCTG	0.622													7	49					0	0	0.001984	0	0	
MN1	4330	broad.mit.edu	37	22	28195359	28195359	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:28195359G>A	uc003adj.2	-	1	2128	c.1173C>T	c.(1171-1173)GGC>GGT	p.G391G		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	391							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						CCTGCAGGCCGCCGCTGGGCG	0.612			T	ETV6	AML|meningioma								4	8					0	0	0.009096	0	0	
PES1	23481	broad.mit.edu	37	22	30977552	30977552	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:30977552C>T	uc003aij.1	-	7	784	c.710G>A	c.(709-711)CGC>CAC	p.R237H	PES1_uc003aik.1_Missense_Mutation_p.R237H|PES1_uc003ail.1_Missense_Mutation_p.R220H|PES1_uc003aim.1_Missense_Mutation_p.R237H|PES1_uc003ain.1_Missense_Mutation_p.R98H|PES1_uc003aio.1_Missense_Mutation_p.R98H	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain	237	Sufficient for nucleolar localization.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						CTGGTAAAGGCGGAAGTTGAC	0.597													7	19					0	0	0.001984	0	0	
INPP5J	27124	broad.mit.edu	37	22	31522407	31522407	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:31522407C>T	uc003aju.3	+	3	1409	c.1317C>T	c.(1315-1317)GAC>GAT	p.D439D	INPP5J_uc010gwf.2_Silent_p.D439D|INPP5J_uc003ajv.3_Silent_p.D72D|INPP5J_uc003ajs.3_Silent_p.D72D|INPP5J_uc011alk.1_Silent_p.D372D|INPP5J_uc010gwg.2_Silent_p.D4D|INPP5J_uc003ajw.2_Translation_Start_Site|INPP5J_uc003ajt.3_Silent_p.D71D|INPP5J_uc003ajx.2_5'Flank|INPP5J_uc003ajy.2_5'Flank|INPP5J_uc003ajz.2_5'Flank	NM_001002837	NP_001002837	Q15735	PI5PA_HUMAN	phosphatidylinositol (4,5) bisphosphate	439	Catalytic (Potential).					cytoplasm|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|SH3 domain binding			skin(1)	1						TGCCCCCAGACGATGTCACAT	0.632													21	121					0	0	0.014323	0	0	
DEPDC5	9681	broad.mit.edu	37	22	32210985	32210985	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:32210985C>T	uc003als.2	+	21	1595	c.1453C>T	c.(1453-1455)CGA>TGA	p.R485*	DEPDC5_uc011als.1_Nonsense_Mutation_p.R485*|DEPDC5_uc011alu.1_Nonsense_Mutation_p.R485*|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Nonsense_Mutation_p.R485*|DEPDC5_uc003alr.1_Nonsense_Mutation_p.R485*|DEPDC5_uc011alt.1_Nonsense_Mutation_p.R457*	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	485					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						CAGATCTGTGCGAGAGCGAGA	0.527													14	53					0	0	0.002450	0	0	
HMGXB4	10042	broad.mit.edu	37	22	35660704	35660704	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:35660704C>T	uc003anl.2	+	5	497	c.323C>T	c.(322-324)ACA>ATA	p.T108I	HMGXB4_uc011amh.1_5'UTR|HMGXB4_uc003ank.2_5'UTR	NM_001003681	NP_001003681	Q9UGU5	HMGX4_HUMAN	high-mobility group protein 2-like 1	108					endosome to lysosome transport|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	NURF complex	DNA binding			breast(1)|skin(1)	2						TCTACTGATACAGCTATGGAC	0.448													9	125					0	0	0.006214	0	0	
APOL2	23780	broad.mit.edu	37	22	36624092	36624092	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:36624092G>A	uc003aoz.2	-	5	708	c.372C>T	c.(370-372)GGC>GGT	p.G124G	APOL2_uc011amm.1_Silent_p.G236G|APOL2_uc003apa.2_Silent_p.G124G	NM_030882	NP_112092	Q9BQE5	APOL2_HUMAN	apolipoprotein L2	124					acute-phase response|cholesterol metabolic process|lipid transport|lipoprotein metabolic process|maternal process involved in female pregnancy|multicellular organismal development	endoplasmic reticulum membrane|extracellular region	high-density lipoprotein particle binding|lipid binding|receptor binding				0						CAGAGGTAGTGCCAACAGAGT	0.567													11	53					0	0	0.008291	0	0	
ELFN2	114794	broad.mit.edu	37	22	37771205	37771205	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:37771205G>A	uc003asq.3	-	3	1156	c.370C>T	c.(370-372)CGA>TGA	p.R124*		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	124	LRR 3.|Extracellular (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					CTCATGCCTCGCAGCATGCCC	0.622													8	67					0	0	0.004482	0	0	
KCNJ4	3761	broad.mit.edu	37	22	38823343	38823343	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:38823343G>A	uc003avs.1	-	2	892	c.795C>T	c.(793-795)ATC>ATT	p.I265I	KCNJ4_uc003avt.1_Silent_p.I265I	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	265	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					TGTCCTCGTCGATCTCGTGGA	0.617													7	40					0	0	0.003080	0	0	
APOBEC3B	9582	broad.mit.edu	37	22	39388072	39388072	+	Missense_Mutation	SNP	G	A	A	rs1053813	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:39388072G>A	uc003awo.1	+	7	1106	c.1052G>A	c.(1051-1053)CGC>CAC	p.R351H	APOBEC3A_uc011aoc.1_Intron|APOBEC3B_uc003awp.1_Missense_Mutation_p.R326H|APOBEC3B_uc003awq.1_RNA|APOBEC3D_uc011aod.1_Intron|APOBEC3D_uc011aoe.1_Intron|APOBEC3D_uc011aof.1_Intron	NM_004900	NP_004891	Q9UH17	ABC3B_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	351					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(58;0.04)					TTTGTGTACCGCCAGGGATGT	0.612													5	22					0	0	0.001168	0	0	
ST13	6767	broad.mit.edu	37	22	41222545	41222545	+	Silent	SNP	C	T	T	rs12373984		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:41222545C>T	uc003aze.2	-	12	1250	c.1107G>A	c.(1105-1107)GCG>GCA	p.A369A	ST13_uc011aow.1_Silent_p.A359A	NM_003932	NP_003923	P50502	F10A1_HUMAN	heat shock 70kD protein binding protein	369							protein binding, bridging				0						AAGGACATTACGCTTGACCTC	0.413													24	129					0	0	0.007291	0	0	
TEF	7008	broad.mit.edu	37	22	41790186	41790186	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:41790186G>A	uc003azy.2	+	3	648	c.562G>A	c.(562-564)GCC>ACC	p.A188T	TEF_uc003azx.2_Missense_Mutation_p.A158T|TEF_uc011apa.1_Missense_Mutation_p.A193T	NM_003216	NP_003207	Q10587	TEF_HUMAN	thyrotrophic embryonic factor isoform 1	188	Pro-rich (proline/acidic region (PAR)).				rhythmic process	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TCCGGACCCCGCCGACCTGGT	0.552													16	79					0	0	0.004007	0	0	
TOB2	10766	broad.mit.edu	37	22	41833202	41833202	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:41833202G>A	uc003azz.1	-	2	855	c.148C>T	c.(148-150)CTG>TTG	p.L50L		NM_016272	NP_057356	Q14106	TOB2_HUMAN	transducer of ERBB2, 2	50					female gamete generation|negative regulation of cell proliferation	cytoplasm|nucleus				ovary(1)	1						GAGCCTTTCAGTGGCTTCTCA	0.602													6	36					0	0	0.001984	0	0	
MCAT	27349	broad.mit.edu	37	22	43529111	43529111	+	Missense_Mutation	SNP	C	T	T	rs143026395		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:43529111C>T	uc003bdl.1	-	4	1160	c.1111G>A	c.(1111-1113)GCC>ACC	p.A371T	MCAT_uc003bdm.1_3'UTR	NM_173467	NP_775738	Q8IVS2	FABD_HUMAN	mitochondrial malonyltransferase isoform a	371					fatty acid biosynthetic process	mitochondrion	[acyl-carrier-protein] S-malonyltransferase activity|binding			ovary(1)	1		Ovarian(80;0.0694)				ACATCCACGGCGCTGTAGGAC	0.612													31	100					0	0	0.010818	0	0	
SCUBE1	80274	broad.mit.edu	37	22	43619155	43619155	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:43619155G>A	uc003bdt.1	-	11	1363	c.1275C>T	c.(1273-1275)GGC>GGT	p.G425G		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	425					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				TCTCCACACCGCCTGCCTTGC	0.627													27	116					0	0	0.007291	0	0	
EFCAB6	64800	broad.mit.edu	37	22	44031028	44031028	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:44031028G>A	uc003bdy.1	-	18	2267	c.2052C>T	c.(2050-2052)TTC>TTT	p.F684F	EFCAB6_uc003bdz.1_Silent_p.F532F|EFCAB6_uc010gzi.1_Silent_p.F532F|EFCAB6_uc010gzj.1_Intron|EFCAB6_uc010gzk.1_Intron	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	684					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CTTCCTTCTCGAAGCCTATTT	0.537													4	51					0	0	0.000602	0	0	
SAMM50	25813	broad.mit.edu	37	22	44368144	44368144	+	Silent	SNP	C	T	T	rs142640319		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:44368144C>T	uc003bej.2	+	5	548	c.351C>T	c.(349-351)GAC>GAT	p.D117D	SAMM50_uc011aqd.1_Intron|SAMM50_uc003bek.2_5'Flank	NM_015380	NP_056195	Q9Y512	SAM50_HUMAN	sorting and assembly machinery component 50	117					protein import into mitochondrial outer membrane	integral to membrane|integral to membrane of membrane fraction|mitochondrial sorting and assembly machinery complex	protein binding			skin(1)	1		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				ATGGGTTAGACGTTACCTTTG	0.363													9	43					0	0	0.006214	0	0	
GRAMD4	23151	broad.mit.edu	37	22	47033823	47033823	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:47033823C>A	uc003bhx.2	+	2	288	c.249C>A	c.(247-249)CAC>CAA	p.H83Q	GRAMD4_uc010had.2_Missense_Mutation_p.H22Q	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	83	Potential.				apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		TCAAAGGTCACCTGGAAATTG	0.502													16	93					3.45872e-05	3.69232e-05	0.004007	1	0	
CRELD2	79174	broad.mit.edu	37	22	50318101	50318101	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:50318101C>T	uc003bja.2	+	8	1001	c.866C>T	c.(865-867)GCA>GTA	p.A289V	CRELD2_uc010haj.2_Missense_Mutation_p.A289V|CRELD2_uc010hal.2_Missense_Mutation_p.A338V|CRELD2_uc010hak.2_Missense_Mutation_p.A261V|CRELD2_uc010ham.2_Intron	NM_024324	NP_077300	Q6UXH1	CREL2_HUMAN	cysteine-rich with EGF-like domains 2 isoform b	289	FU 2.					endoplasmic reticulum|extracellular region	calcium ion binding				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.198)|LUAD - Lung adenocarcinoma(64;0.247)		GGACAGTGTGCAGGTCAGTGA	0.592													3	11					0	0	0.004672	0	0	
TRABD	80305	broad.mit.edu	37	22	50635771	50635771	+	Silent	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:50635771C>A	uc003bjq.1	+	6	608	c.522C>A	c.(520-522)GCC>GCA	p.A174A	TRABD_uc003bjr.1_Silent_p.A58A|TRABD_uc003bjs.1_Silent_p.A174A|TRABD_uc003bjt.1_Silent_p.A174A|TRABD_uc003bju.1_Silent_p.A174A|TRABD_uc003bjv.2_Silent_p.A174A|TRABD_uc003bjw.1_Silent_p.A174A	NM_025204	NP_079480	Q9H4I3	TRABD_HUMAN	TraB domain containing	174											0		all_cancers(38;1.07e-07)|all_epithelial(38;9.6e-07)|all_lung(38;0.00141)|Breast(42;0.00387)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		LUAD - Lung adenocarcinoma(64;0.105)		TCAGGGAGGCCTTCAAGGAGG	0.652													12	55					1.08611e-07	1.18576e-07	0.010729	1	0	
SBF1	6305	broad.mit.edu	37	22	50892961	50892961	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:50892961C>T	uc003blh.2	-	36	5218	c.5023G>A	c.(5023-5025)GCC>ACC	p.A1675T	SBF1_uc003ble.2_Missense_Mutation_p.A139T|SBF1_uc003blf.2_Missense_Mutation_p.A151T|SBF1_uc011arx.1_Missense_Mutation_p.A1313T	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1649					protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		CGTGAGATGGCGTCAGGCTGG	0.672													12	52					0	0	0.001855	0	0	
SHANK3	85358	broad.mit.edu	37	22	51160524	51160524	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr22:51160524G>A	uc003bne.1	+	22	4311	c.4311G>A	c.(4309-4311)CCG>CCA	p.P1437P	SHANK3_uc003bnf.1_Silent_p.P884P|SHANK3_uc010hbg.1_Silent_p.P619P	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	1437										central_nervous_system(1)	1		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		TCAAGTCCCCGCTGGGGAAGG	0.652													6	22					0	0	0.001168	0	0	
BRPF1	7862	broad.mit.edu	37	3	9781452	9781452	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:9781452C>T	uc003bse.2	+	3	1768	c.1369C>T	c.(1369-1371)CCT>TCT	p.P457S	BRPF1_uc003bsf.2_Missense_Mutation_p.P457S|BRPF1_uc003bsg.2_Missense_Mutation_p.P457S|BRPF1_uc011ati.1_Missense_Mutation_p.P457S	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	457					histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					ACGCCGACTGCCTGCCCTGTC	0.507													4	15					0	0	0.009096	0	0	
RAF1	5894	broad.mit.edu	37	3	12645699	12645699	+	Missense_Mutation	SNP	G	A	A	rs80338796		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:12645699G>A	uc003bxf.3	-	7	1185	c.770C>T	c.(769-771)TCG>TTG	p.S257L	RAF1_uc011aut.1_Missense_Mutation_p.S42L|RAF1_uc011auu.1_Missense_Mutation_p.S175L	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	257			S -> L (in NS5 and LEOPARD2; shows in vitro greater kinase activity and enhanced ERK activation than wild-type).		activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	TGTGGATGTCGACCTCTGCCT	0.527			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				12	52					0	0	0.010729	0	0	
TMEM40	55287	broad.mit.edu	37	3	12790209	12790209	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:12790209G>A	uc003bxg.1	-	3	283	c.156C>T	c.(154-156)TCC>TCT	p.S52S	TMEM40_uc003bxh.1_Silent_p.S52S|TMEM40_uc003bxi.1_Intron|TMEM40_uc011auv.1_Silent_p.S68S	NM_018306	NP_060776	Q8WWA1	TMM40_HUMAN	transmembrane protein 40	52	Ser-rich.					integral to membrane					0						aggaggaggaggaagaagaCT	0.259													25	148					0	0	0.002780	0	0	
EFHB	151651	broad.mit.edu	37	3	19975208	19975208	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:19975208T>G	uc003cbl.3	-	1	499	c.303A>C	c.(301-303)AAA>AAC	p.K101N	EFHB_uc003cbm.2_Intron	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	101					signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						ACAGAGAAGGTTTTGTTCCCT	0.463													12	94					0	0	0.003163	0	0	
RBMS3	27303	broad.mit.edu	37	3	29925682	29925682	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:29925682A>G	uc003cel.2	+	8	1004	c.774A>G	c.(772-774)ACA>ACG	p.T258T	RBMS3_uc003cek.2_Silent_p.T258T|RBMS3_uc010hfq.2_Silent_p.T271T|RBMS3_uc003cem.2_Silent_p.T257T|RBMS3_uc010hfr.2_Silent_p.T258T	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	258						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				ATGACCCCACAGCTGCCATAC	0.353													5	44					0	0	0.000602	0	0	
SLC22A14	9389	broad.mit.edu	37	3	38357085	38357085	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:38357085C>T	uc010hhc.1	+	9	1457	c.1415C>T	c.(1414-1416)CCG>CTG	p.P472L	SLC22A14_uc003cib.2_Missense_Mutation_p.P472L|SLC22A14_uc011ayo.1_RNA	NM_004803	NP_004794	Q9Y267	S22AE_HUMAN	organic cation transporter like 4	472	Extracellular (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0554)|Kidney(284;0.0696)		CCACGTTGTCCGGCCACAGAG	0.582													8	52					0	0	0.006214	0	0	
EXOSC7	23016	broad.mit.edu	37	3	45038709	45038709	+	Missense_Mutation	SNP	C	T	T	rs150001306		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:45038709C>T	uc003coi.2	+	4	414	c.385C>T	c.(385-387)CGG>TGG	p.R129W	EXOSC7_uc003coh.1_Missense_Mutation_p.R64W|EXOSC7_uc011bae.1_Missense_Mutation_p.R129W|EXOSC7_uc010his.1_Missense_Mutation_p.R48W|EXOSC7_uc003coj.2_Missense_Mutation_p.R129W	NM_015004	NP_055819	Q15024	EXOS7_HUMAN	exosome component 7	129					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	3'-5'-exoribonuclease activity|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00911)|KIRC - Kidney renal clear cell carcinoma(197;0.0509)|Kidney(197;0.064)		CATTAGTCCTCGGGAGCACTG	0.468													8	43					0	0	0.003080	0	0	
SACM1L	22908	broad.mit.edu	37	3	45780148	45780148	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:45780148C>T	uc003cos.2	+	17	1665	c.1461C>T	c.(1459-1461)TCC>TCT	p.S487S	SACM1L_uc011bag.1_Silent_p.S384S|SACM1L_uc011bah.1_Silent_p.S421S|SACM1L_uc003cot.2_Silent_p.S130S	NM_014016	NP_054735	Q9NTJ5	SAC1_HUMAN	suppressor of actin 1	487						Golgi apparatus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0102)|KIRC - Kidney renal clear cell carcinoma(197;0.0234)|Kidney(197;0.0277)		ACAACTTTTCCGATGGATTTA	0.343													8	54					0	0	0.006214	0	0	
CCR2	729230	broad.mit.edu	37	3	46399158	46399158	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:46399158C>T	uc003cpn.3	+	2	625	c.140C>T	c.(139-141)CCG>CTG	p.P47L	CCR2_uc003cpm.3_Missense_Mutation_p.P47L	NM_001123041	NP_001116513	P41597	CCR2_HUMAN	chemokine (C-C motif) receptor 2 isoform A	47	Helical; Name=1; (Potential).				astrocyte cell migration|blood vessel remodeling|cellular defense response|chemokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response|interspecies interaction between organisms|JAK-STAT cascade|monocyte extravasation|negative regulation of adenylate cyclase activity|negative regulation of angiogenesis|negative regulation of eosinophil degranulation|negative regulation of type 2 immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of immune complex clearance by monocytes and macrophages|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-2 production|positive regulation of monocyte chemotaxis|positive regulation of T cell chemotaxis|positive regulation of T cell extravasation|positive regulation of T-helper 1 type immune response|positive regulation of tumor necrosis factor biosynthetic process|regulation of vascular endothelial growth factor production|T-helper 17 cell chemotaxis	cytosol|dendrite|integral to plasma membrane|perikaryon|perinuclear region of cytoplasm|soluble fraction	C-C chemokine receptor activity|CCR2 chemokine receptor binding|protein homodimerization activity			lung(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0174)|Kidney(197;0.0206)		CTCCTGCCTCCGCTCTACTCG	0.458													25	112					0	0	0.003330	0	0	
CCR5	1234	broad.mit.edu	37	3	46415343	46415343	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:46415343C>T	uc003cpo.3	+	3	1072	c.950C>T	c.(949-951)GCC>GTC	p.A317V	CCR5_uc010hjd.2_Missense_Mutation_p.A317V	NM_001100168	NP_001093638	P51681	CCR5_HUMAN	chemokine (C-C motif) receptor 5	317	Cytoplasmic (Potential).				cell-cell signaling|cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|immune response|inflammatory response|initiation of viral infection	endosome|external side of plasma membrane|integral to plasma membrane	actin binding|C-C chemokine receptor activity|coreceptor activity|phosphatidylinositol phospholipase C activity			lung(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.00112)|KIRC - Kidney renal clear cell carcinoma(197;0.017)|Kidney(197;0.02)	Maraviroc(DB04835)	AAGCACATTGCCAAACGCTTC	0.493													41	127					0	0	0.005524	0	0	
COL7A1	1294	broad.mit.edu	37	3	48622168	48622168	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:48622168G>A	uc003ctz.2	-	34	4047	c.4046C>T	c.(4045-4047)CCG>CTG	p.P1349L		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1349	Triple-helical region.|Interrupted collagenous region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TTCACCTACCGGCTCCCCCTT	0.647													6	39					0	0	0.001168	0	0	
CELSR3	1951	broad.mit.edu	37	3	48677486	48677486	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:48677486G>A	uc003cul.2	-	34	9813	c.9532C>T	c.(9532-9534)CGG>TGG	p.R3178W	CELSR3_uc003cuf.1_Missense_Mutation_p.R3276W|CELSR3_uc010hkf.2_Missense_Mutation_p.R468W|CELSR3_uc010hkg.2_Missense_Mutation_p.R1161W	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	3178	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GAGAGTTGCCGCTGGGGAGAC	0.682													8	18					0	0	0.004482	0	0	
DALRD3	55152	broad.mit.edu	37	3	49053239	49053239	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:49053239C>A	uc003cvk.1	-	11	1530	c.1510G>T	c.(1510-1512)GGG>TGG	p.G504W	WDR6_uc003cvj.2_3'UTR|WDR6_uc011bby.1_3'UTR|WDR6_uc010hkn.2_3'UTR|WDR6_uc011bbz.1_3'UTR|DALRD3_uc003cvl.1_Missense_Mutation_p.G495V|DALRD3_uc003cvm.1_Missense_Mutation_p.G337W|DALRD3_uc010hko.1_Intron	NM_001009996	NP_001009996	Q5D0E6	DALD3_HUMAN	DALR anticodon binding domain containing 3	504					arginyl-tRNA aminoacylation	cytoplasm	arginine-tRNA ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GTGCTCACCCCCAGGATGTGT	0.522													15	83					1.3612e-06	1.47093e-06	0.003163	1	0	
KLHDC8B	200942	broad.mit.edu	37	3	49212303	49212303	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:49212303G>A	uc003cwh.2	+	4	855	c.670G>A	c.(670-672)GTC>ATC	p.V224I	KLHDC8B_uc003cwi.1_Missense_Mutation_p.V97I	NM_173546	NP_775817	Q8IXV7	KLD8B_HUMAN	kelch domain containing 8B	224	Kelch 6.					cytoplasm					0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		TGAAGGCAGCGTCTTTAGCCT	0.592													7	43					0	0	0.003080	0	0	
MST1R	4486	broad.mit.edu	37	3	49940022	49940022	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:49940022C>T	uc003cxy.3	-	1	1285	c.1021G>A	c.(1021-1023)GAG>AAG	p.E341K	MST1R_uc011bdd.1_Missense_Mutation_p.E341K|MST1R_uc011bde.1_Missense_Mutation_p.E341K|MST1R_uc011bdf.1_Missense_Mutation_p.E341K|MST1R_uc011bdg.1_Missense_Mutation_p.E341K	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	341	Extracellular (Potential).|Sema.				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		TCCTGGCCCTCGGCGATGCTC	0.652													24	133					0	0	0.014323	0	0	
RRP9	9136	broad.mit.edu	37	3	51968519	51968519	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:51968519C>T	uc003dbw.1	-	13	1268	c.1229G>A	c.(1228-1230)CGG>CAG	p.R410Q		NM_004704	NP_004695	O43818	U3IP2_HUMAN	RNA, U3 small nucleolar interacting protein 2	410	WD 6.				rRNA processing	nucleolus|small nuclear ribonucleoprotein complex|small nucleolar ribonucleoprotein complex	RNA binding			breast(2)|ovary(1)	3				BRCA - Breast invasive adenocarcinoma(193;8.04e-05)|Kidney(197;0.000553)|KIRC - Kidney renal clear cell carcinoma(197;0.000724)		GTCAAGCTGCCGGAAGCCTTC	0.622													7	21					0	0	0.001984	0	0	
CACNA1D	776	broad.mit.edu	37	3	53531422	53531422	+	Missense_Mutation	SNP	G	A	A	rs144915770		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:53531422G>A	uc003dgv.3	+	2	474	c.311G>A	c.(310-312)CGC>CAC	p.R104H	CACNA1D_uc003dgu.3_Missense_Mutation_p.R104H|CACNA1D_uc003dgy.3_Missense_Mutation_p.R104H	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	104	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	CGACCTGCCCGCGCCCTTTTC	0.478													14	88					0	0	0.004990	0	0	
CHDH	55349	broad.mit.edu	37	3	53854543	53854543	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:53854543G>A	uc003dgz.2	-	6	1518	c.1078C>T	c.(1078-1080)CGG>TGG	p.R360W		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	360					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)	Choline(DB00122)	CAGACCTTCCGCAGGGGCTTC	0.552													16	65					0	0	0.006122	0	0	
PDHB	5162	broad.mit.edu	37	3	58417706	58417706	+	Silent	SNP	T	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:58417706T>A	uc003dkf.3	-	3	131	c.102A>T	c.(100-102)ACA>ACT	p.T34T	PDHB_uc003dke.3_5'UTR|PDHB_uc003dkg.3_Silent_p.T16T|PDHB_uc010hnl.2_Silent_p.T16T|PDHB_uc011bff.1_Silent_p.T34T	NM_000925	NP_000916	P11177	ODPB_HUMAN	pyruvate dehydrogenase (lipoamide) beta	34					glycolysis|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(55;0.000179)|Kidney(10;0.00231)|KIRC - Kidney renal clear cell carcinoma(10;0.00258)|OV - Ovarian serous cystadenocarcinoma(275;0.187)	NADH(DB00157)|Pyruvic acid(DB00119)	CATCACGAACTGTCACCTGTC	0.418													9	37					0	0	0.004482	0	0	
FAM3D	131177	broad.mit.edu	37	3	58639469	58639469	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:58639469G>A	uc003dkq.2	-	3	350	c.53C>T	c.(52-54)ACG>ATG	p.T18M		NM_138805	NP_620160	Q96BQ1	FAM3D_HUMAN	family with sequence similarity 3, member D	18					negative regulation of insulin secretion	extracellular region	cytokine activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000225)|Kidney(10;0.000667)|KIRC - Kidney renal clear cell carcinoma(10;0.000802)|OV - Ovarian serous cystadenocarcinoma(275;0.169)		CATCCATGTCGTGACTATGGC	0.567													13	71					0	0	0.013537	0	0	
MAGI1	9223	broad.mit.edu	37	3	65342220	65342220	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:65342220C>T	uc003dmn.2	-	23	4748	c.4222G>A	c.(4222-4224)GAG>AAG	p.E1408K	MAGI1_uc003dmm.2_3'UTR	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	1437					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		CTCCTGCGCTCGGGGGAGCGT	0.667													10	110					0	0	0.008291	0	0	
FAM86D	692099	broad.mit.edu	37	3	75475644	75475644	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:75475644G>A	uc003dpp.3	-	7	953	c.594C>T	c.(592-594)ACC>ACT	p.T198T	FAM86D_uc003dpo.3_RNA|FAM86D_uc003dps.3_RNA|FAM86D_uc003dpq.3_Silent_p.T106T|FAM86D_uc003dpr.3_RNA	NR_024241				RecName: Full=Protein FAM86B1;												0						GGTTGTGGACGGTAAAGGCCA	0.652													6	52					0	0	0.001984	0	0	
NIT2	56954	broad.mit.edu	37	3	100065064	100065064	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:100065064G>A	uc003dtv.2	+	6	544	c.470G>A	c.(469-471)CGG>CAG	p.R157Q	NIT2_uc011bha.1_Missense_Mutation_p.G126S	NM_020202	NP_064587	Q9NQR4	NIT2_HUMAN	nitrilase family, member 2	157	CN hydrolase.				nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1						TACGACATGCGGTTTGCAGAG	0.493													3	22					0	0	0.009096	0	0	
KTELC1	56983	broad.mit.edu	37	3	119209485	119209485	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:119209485T>C	uc003ecm.2	+	9	969	c.885T>C	c.(883-885)GAT>GAC	p.D295D	KTELC1_uc011biz.1_RNA|KTELC1_uc011bja.1_Silent_p.D136D	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	295						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		ATGTTGGTGATGAGTGGCTAG	0.443													15	122					0	0	0.002450	0	0	
ILDR1	286676	broad.mit.edu	37	3	121720675	121720675	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:121720675T>C	uc003ees.2	-	4	522	c.416A>G	c.(415-417)GAC>GGC	p.D139G	ILDR1_uc003eeq.2_Missense_Mutation_p.D151G|ILDR1_uc003eer.2_Missense_Mutation_p.D139G|ILDR1_uc010hrg.2_Intron	NM_175924	NP_787120	Q86SU0	ILDR1_HUMAN	immunoglobulin-like domain containing receptor	139	Extracellular (Potential).|Ig-like V-type.					cytosol|integral to membrane|plasma membrane	receptor activity			skin(1)	1				GBM - Glioblastoma multiforme(114;0.156)		CACTCCATGGTCCCACCACAT	0.502													15	51					0	0	0.002450	0	0	
ADCY5	111	broad.mit.edu	37	3	123021992	123021992	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:123021992C>T	uc003egh.1	-	14	2634	c.2634G>A	c.(2632-2634)GCG>GCA	p.A878A	ADCY5_uc003egg.1_Silent_p.A511A|ADCY5_uc003egi.1_Silent_p.A437A	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	878	Extracellular (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		CCACGTGACACGCGTTGACCT	0.642													7	37					0	0	0.001984	0	0	
MYLK	4638	broad.mit.edu	37	3	123419658	123419658	+	Missense_Mutation	SNP	G	A	A	rs140989388		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:123419658G>A	uc003ego.2	-	18	2939	c.2657C>T	c.(2656-2658)GCG>GTG	p.A886V	MYLK_uc011bjw.1_Missense_Mutation_p.A886V|MYLK_uc003egp.2_Missense_Mutation_p.A817V|MYLK_uc003egq.2_Missense_Mutation_p.A886V|MYLK_uc003egr.2_Missense_Mutation_p.A817V|MYLK_uc003egs.2_Missense_Mutation_p.A710V|MYLK_uc003egt.2_Missense_Mutation_p.A77V	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	886	5 X 28 AA approximate tandem repeats.|1-1.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CTGGCGGATCGCCTCCTCAGT	0.622													9	47					0	0	0.006214	0	0	
SEC61A1	29927	broad.mit.edu	37	3	127779411	127779411	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:127779411C>A	uc003ekb.2	+	7	707	c.523C>A	c.(523-525)CTT>ATT	p.L175I	SEC61A1_uc003ekc.2_Missense_Mutation_p.L122I|SEC61A1_uc003ekd.2_Missense_Mutation_p.L55I	NM_013336	NP_037468	P61619	S61A1_HUMAN	Sec61 alpha 1 subunit	175	Helical; (Potential).				protein targeting to ER	integral to endoplasmic reticulum membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|protein binding|ribosome binding			ovary(1)	1						AGGATATGGCCTTGGCTCTGG	0.428													8	80					5.18039e-06	5.56393e-06	0.003080	1	0	
CPNE4	131034	broad.mit.edu	37	3	131293941	131293941	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:131293941T>C	uc003eok.2	-	10	1336	c.901A>G	c.(901-903)ATG>GTG	p.M301V	CPNE4_uc011blq.1_Missense_Mutation_p.M319V|CPNE4_uc003eol.2_Missense_Mutation_p.M319V|CPNE4_uc003eom.2_Missense_Mutation_p.M301V	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	301										upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CAGCCACCCATGATGTAGTCC	0.438													9	59					0	0	0.008291	0	0	
SLCO2A1	6578	broad.mit.edu	37	3	133661493	133661493	+	Silent	SNP	C	T	T	rs145832999	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:133661493C>T	uc003eqa.3	-	11	1855	c.1581G>A	c.(1579-1581)CTG>CTA	p.L527L	SLCO2A1_uc003eqb.3_Silent_p.L451L|SLCO2A1_uc011blv.1_Silent_p.L346L	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	527	Helical; Name=10; (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						TGCAGGCTATCAGGGACACGA	0.602													7	49					0	0	0.001984	0	0	
GRK7	131890	broad.mit.edu	37	3	141497441	141497441	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:141497441G>A	uc011bnd.1	+	1	399	c.315G>A	c.(313-315)GCG>GCA	p.A105A		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	105	RGS.				visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						AAGACAGCGCGCTGCAGGGGC	0.667													6	26					0	0	0.001984	0	0	
PLSCR4	57088	broad.mit.edu	37	3	145917640	145917640	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:145917640C>T	uc010huy.2	-	6	913	c.584G>A	c.(583-585)TGC>TAC	p.C195Y	PLSCR4_uc010huz.2_Missense_Mutation_p.C195Y|PLSCR4_uc003evt.3_Missense_Mutation_p.C195Y|PLSCR4_uc010hva.2_Intron|PLSCR4_uc003evu.3_Intron	NM_001128305	NP_001121777	Q9NRQ2	PLS4_HUMAN	phospholipid scramblase 4 isoform a	195	Cys-rich.|Cytoplasmic (By similarity).				blood coagulation|phospholipid scrambling	integral to membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding				0						ACAGCAGGTGCATCTGAAGGG	0.507													6	29					0	0	0.003080	0	0	
ZIC1	7545	broad.mit.edu	37	3	147128485	147128485	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:147128485G>A	uc003ewe.2	+	1	1305	c.586G>A	c.(586-588)GGC>AGC	p.G196S		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	196					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GCAGCTGCACGGCTACGGGCC	0.652													7	38					0	0	0.003080	0	0	
FAM194A	131831	broad.mit.edu	37	3	150398595	150398595	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:150398595G>A	uc003eyg.2	-	8	1062	c.1005C>T	c.(1003-1005)GTC>GTT	p.V335V	FAM194A_uc003eyh.2_Silent_p.V189V	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	335										skin(2)|ovary(1)	3						TGAGTCTGTCGACCTCACTAC	0.413													9	79					0	0	0.004482	0	0	
IGSF10	285313	broad.mit.edu	37	3	151174864	151174864	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:151174864C>A	uc011bod.1	-	2	274	c.274G>T	c.(274-276)GGC>TGC	p.G92C		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	92	LRR 2.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GTGTGAATGCCATTGCTGTGA	0.453													12	58					7.03913e-09	7.74085e-09	0.013537	1	0	
ARPM1	84517	broad.mit.edu	37	3	169485486	169485486	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:169485486C>A	uc003ffs.1	-	2	1228	c.853G>T	c.(853-855)GGC>TGC	p.G285C	TERC_uc003ffr.1_5'Flank	NM_032487	NP_115876	Q9BYD9	ARPM1_HUMAN	actin related protein M1	285						cytoplasm|cytoskeleton					0	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;5.01e-59)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			TTCCTCAGGCCTGTATCACAT	0.458													21	103					3.08376e-08	3.38415e-08	0.003330	1	0	
PLD1	5337	broad.mit.edu	37	3	171392296	171392296	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:171392296G>A	uc003fhs.2	-	19	2339	c.2223C>T	c.(2221-2223)AAC>AAT	p.N741N	PLD1_uc003fht.2_Silent_p.N703N|PLD1_uc003fhu.3_Silent_p.N35N|PLD1_uc003fhv.1_Silent_p.N66N	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	741	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	TTACCTGTACGTTAGCATGGA	0.388													6	48					0	0	0.001168	0	0	
PIK3CA	5290	broad.mit.edu	37	3	178952084	178952084	+	Missense_Mutation	SNP	C	T	T	rs121913281		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:178952084C>T	uc003fjk.2	+	21	3296	c.3139C>T	c.(3139-3141)CAT>TAT	p.H1047Y		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1247)|p.H1047L(145)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAATGATGCACATCATGGTGG	0.373	H1047Y(MFE280_ENDOMETRIUM)|H1047Y(TOV21G_OVARY)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			11	74					0	0	0.008291	0	0	
FAM131A	131408	broad.mit.edu	37	3	184059734	184059734	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:184059734G>A	uc003fog.2	+	1	1477	c.113G>A	c.(112-114)AGC>AAC	p.S38N	FAM131A_uc003fob.1_Intron|FAM131A_uc003foc.2_Intron|FAM131A_uc003foe.2_Intron	NM_144635	NP_653236	Q6UXB0	F131A_HUMAN	hypothetical protein LOC131408 precursor	38						extracellular region				breast(1)	1	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GTGAATCTCAGCCCCTTCTCC	0.547													20	120					0	0	0.007413	0	0	
HRG	3273	broad.mit.edu	37	3	186390618	186390618	+	Missense_Mutation	SNP	C	T	T	rs140916341		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:186390618C>T	uc003fqq.2	+	5	624	c.601C>T	c.(601-603)CGG>TGG	p.R201W		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	201	Cystatin 2.				fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		CTTCTCTGTGCGGAACTGCCC	0.403													8	42					0	0	0.004482	0	0	
BCL6	604	broad.mit.edu	37	3	187444578	187444578	+	Missense_Mutation	SNP	C	T	T	rs147650939		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:187444578C>T	uc003frp.3	-	7	2106	c.1649G>A	c.(1648-1650)CGC>CAC	p.R550H	BCL6_uc011bsf.1_Intron|BCL6_uc010hza.2_Missense_Mutation_p.R448H|BCL6_uc003frq.1_Missense_Mutation_p.R550H	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	550	C2H2-type 2.				negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		GGCCTGGCAGCGGTCACACTT	0.587			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								11	74					0	0	0.010729	0	0	
TCTEX1D2	255758	broad.mit.edu	37	3	196043062	196043062	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:196043062G>A	uc003fwi.2	-	2	290	c.154C>T	c.(154-156)CTC>TTC	p.L52F	TM4SF19_uc003fwj.2_RNA|uc003fwk.1_5'Flank	NM_152773	NP_689986	Q8WW35	TC1D2_HUMAN	Tctex1 domain containing 2	52							protein binding			ovary(1)|breast(1)	2	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		TCCTCCTTGAGCACAGCATGG	0.403													4	34					0	0	0.009096	0	0	
DGKQ	1609	broad.mit.edu	37	4	959075	959075	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:959075C>T	uc003gbw.2	-	15	1697	c.1623G>A	c.(1621-1623)GCG>GCA	p.A541A	DGKQ_uc010ibn.2_Silent_p.A528A	NM_001347	NP_001338	P52824	DGKQ_HUMAN	diacylglycerol kinase, theta	541					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|platelet activation|protein kinase C signaling cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to ATP|thrombin receptor signaling pathway	cytoskeleton|cytosol|nuclear speck|plasma membrane	activating transcription factor binding|ATP binding|diacylglycerol kinase activity|kinase binding|metal ion binding|phospholipase binding			kidney(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CCAACACTACCGCGCCTGCGG	0.682													4	20					0	0	0.009096	0	0	
EVC2	132884	broad.mit.edu	37	4	5578094	5578094	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:5578094G>A	uc003gij.2	-	18	3199	c.3145C>T	c.(3145-3147)CAG>TAG	p.Q1049*	EVC2_uc011bwb.1_Nonsense_Mutation_p.Q489*|EVC2_uc003gik.2_Nonsense_Mutation_p.Q969*	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1049	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						GCCACCCACTGCTGCCAGCTC	0.627													8	30					0	0	0.003080	0	0	
WFS1	7466	broad.mit.edu	37	4	6302887	6302887	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:6302887G>A	uc003giy.2	+	8	1531	c.1365G>A	c.(1363-1365)ACG>ACA	p.T455T	WFS1_uc003gix.2_Silent_p.T455T|WFS1_uc003giz.2_Silent_p.T273T	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	455					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		AGCCCTACACGCGCAGGGCCC	0.637													23	62					0	0	0.002780	0	0	
PPP2R2C	5522	broad.mit.edu	37	4	6325119	6325119	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:6325119C>T	uc003gjc.2	-	9	1624	c.1254G>A	c.(1252-1254)ACG>ACA	p.T418T	PPP2R2C_uc003gjb.2_Silent_p.T401T|PPP2R2C_uc011bwd.1_Silent_p.T411T|PPP2R2C_uc011bwe.1_Silent_p.T411T|PPP2R2C_uc003gja.2_Silent_p.T418T	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	418	WD 7.				signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						GGTGCCAGGCCGTGTGCAGGA	0.587													9	39					0	0	0.008291	0	0	
ZNF518B	85460	broad.mit.edu	37	4	10447064	10447064	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:10447064G>T	uc003gmn.2	-	3	1376	c.889C>A	c.(889-891)CTG>ATG	p.L297M		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						GGCTCAGACAGGGTCATTTTA	0.373													33	155					3.62531e-18	4.08861e-18	0.004289	1	0	
ZNF518B	85460	broad.mit.edu	37	4	10447911	10447911	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:10447911G>A	uc003gmn.2	-	3	529	c.42C>T	c.(40-42)AAC>AAT	p.N14N		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	14					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						TATGTCCGCCGTTCAAGTGTG	0.403													34	150					0	0	0.004878	0	0	
GPR125	166647	broad.mit.edu	37	4	22390560	22390560	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:22390560C>T	uc003gqm.1	-	19	2999	c.2734G>A	c.(2734-2736)GCA>ACA	p.A912T	GPR125_uc010ieo.1_Missense_Mutation_p.A768T|GPR125_uc003gql.1_Missense_Mutation_p.A39T	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	912	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				GGTTCCCATGCCATCCAGCAA	0.403													18	44					0	0	0.004990	0	0	
TLR10	81793	broad.mit.edu	37	4	38777063	38777063	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:38777063G>A	uc003gti.2	-	2	528	c.149C>T	c.(148-150)ACA>ATA	p.T50I	TLR10_uc003gtj.2_Missense_Mutation_p.T50I|TLR10_uc003gtk.2_Missense_Mutation_p.T50I	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	50	Extracellular (Potential).|LRR 2.				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						CAGTGTCGTTGTGGCTGGGGT	0.458													13	48					0	0	0.003163	0	0	
LRRC66	339977	broad.mit.edu	37	4	52861526	52861526	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:52861526G>A	uc003gzi.2	-	4	1675	c.1662C>T	c.(1660-1662)GGC>GGT	p.G554G		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	554						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						CAGAAGAGACGCCCACTGAAT	0.512													18	104					0	0	0.007413	0	0	
KDR	3791	broad.mit.edu	37	4	55964877	55964877	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:55964877C>T	uc003has.2	-	16	2662	c.2360G>A	c.(2359-2361)CGG>CAG	p.R787Q	KDR_uc003hat.1_Missense_Mutation_p.R787Q	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	787	Helical; (Potential).			R -> G (in Ref. 4; AAA59459/CAA43837).	angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	CTTAACGGTCCGTAGGATGAT	0.433			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			9	40					0	0	0.004482	0	0	
YTHDC1	91746	broad.mit.edu	37	4	69184427	69184427	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:69184427C>T	uc003hdx.2	-	14	2095	c.1742G>A	c.(1741-1743)CGA>CAA	p.R581Q	YTHDC1_uc003hdy.2_Missense_Mutation_p.R563Q	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	581	Arg-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						AAACACATCTCGGCGAACTCC	0.308													7	32					0	0	0.003080	0	0	
PPBP	5473	broad.mit.edu	37	4	74853698	74853698	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:74853698A>G	uc003hhj.2	-	1	203	c.123T>C	c.(121-123)ACT>ACC	p.T41T		NM_002704	NP_002695	P02775	CXCL7_HUMAN	pro-platelet basic protein precursor	41					chemotaxis|defense response to bacterium|immune response|platelet activation|platelet degranulation|positive regulation of cell division	extracellular space|platelet alpha granule lumen	chemokine activity|glucose transmembrane transporter activity|growth factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(15;0.00136)		all cancers(17;0.00273)|Lung(101;0.196)			AGTTTCTCTTAGTTTGTCCTT	0.532													4	50					0	0	0.009096	0	0	
PTPN13	5783	broad.mit.edu	37	4	87622904	87622904	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:87622904G>A	uc003hpz.2	+	7	1625	c.1145G>A	c.(1144-1146)CGA>CAA	p.R382Q	PTPN13_uc003hpy.2_Missense_Mutation_p.R382Q|PTPN13_uc003hqa.2_Missense_Mutation_p.R382Q|PTPN13_uc003hqb.2_Missense_Mutation_p.R382Q	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	382						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		GACCGAATCCGAGAGAGACAA	0.393													10	57					0	0	0.006214	0	0	
ADH1A	124	broad.mit.edu	37	4	100205900	100205900	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:100205900G>A	uc003hur.1	-	4	391	c.320C>T	c.(319-321)CCG>CTG	p.P107L	uc003hum.1_Intron|ADH1A_uc011ceg.1_Missense_Mutation_p.P107L|ADH1A_uc010ilf.1_5'Flank|ADH1A_uc010ilg.1_Missense_Mutation_p.P107L	NM_000667	NP_000658	P07327	ADH1A_HUMAN	class I alcohol dehydrogenase, alpha subunit	107					ethanol oxidation|transcription, DNA-dependent|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|protein binding|zinc ion binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Fomepizole(DB01213)|NADH(DB00157)	GTTGCTCTCCGGGTTTTTACA	0.418													8	51					0	0	0.003080	0	0	
TACR3	6870	broad.mit.edu	37	4	104640560	104640560	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:104640560C>T	uc003hxe.1	-	1	416	c.273G>A	c.(271-273)GCG>GCA	p.A91A		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	91	Helical; Name=1; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		CCACACCATACGCCAGGGACC	0.617													18	54					0	0	0.007413	0	0	
ANK2	287	broad.mit.edu	37	4	114277438	114277438	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:114277438C>T	uc003ibe.3	+	38	7764	c.7664C>T	c.(7663-7665)ACA>ATA	p.T2555I	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Intron|ANK2_uc011cgb.1_Missense_Mutation_p.T2570I	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2522					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CCCAAAACCACAGATGTAAGT	0.493													23	109					0	0	0.002780	0	0	
HSPA4L	22824	broad.mit.edu	37	4	128724950	128724950	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:128724950T>C	uc003ifm.2	+	7	1083	c.830T>C	c.(829-831)ATG>ACG	p.M277T	HSPA4L_uc010iny.1_Missense_Mutation_p.M236T|HSPA4L_uc011cgr.1_Missense_Mutation_p.M244T	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	277					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						AAGAAGCTAATGAGTGCAAAT	0.343													11	43					0	0	0.010729	0	0	
PCDH10	57575	broad.mit.edu	37	4	134084187	134084187	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:134084187T>A	uc003iha.2	+	4	3679	c.2853T>A	c.(2851-2853)GAT>GAA	p.D951E		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	951	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GCCACTCAGATCGGTGCTGGA	0.488													5	71					0	0	0.000602	0	0	
PCDH18	54510	broad.mit.edu	37	4	138450912	138450912	+	Silent	SNP	C	T	T	rs140521915		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:138450912C>T	uc003ihe.3	-	1	2718	c.2331G>A	c.(2329-2331)TCG>TCA	p.S777S	PCDH18_uc003ihf.3_Silent_p.S770S|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Silent_p.S557S|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	777	Cytoplasmic (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					AAGATGGAGACGATCTGTGAT	0.502													5	40					0	0	0.000602	0	0	
ABCE1	6059	broad.mit.edu	37	4	146044706	146044706	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:146044706G>A	uc003ijx.2	+	16	2034	c.1594G>A	c.(1594-1596)GTC>ATC	p.V532I	ABCE1_uc003ijy.2_Missense_Mutation_p.V532I|ABCE1_uc010iot.2_RNA	NM_001040876	NP_001035809	P61221	ABCE1_HUMAN	ATP-binding cassette, sub-family E, member 1	532	ABC transporter 2.				interspecies interaction between organisms|response to virus|RNA catabolic process	mitochondrion	ATP binding|ATPase activity|electron carrier activity|iron-sulfur cluster binding|ribonuclease inhibitor activity			skin(1)	1	all_hematologic(180;0.151)					AGCGGATCGCGTCATCGTTTT	0.338													8	25					0	0	0.004482	0	0	
ARHGAP10	79658	broad.mit.edu	37	4	148827846	148827846	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:148827846G>A	uc003ilf.2	+	11	1092	c.1092G>A	c.(1090-1092)TTG>TTA	p.L364L	ARHGAP10_uc003ilg.2_Silent_p.L13L	NM_024605	NP_078881	A1A4S6	RHG10_HUMAN	Rho GTPase activating protein 10	364	PH.				apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)		AGCAGTGGTTGGAAGCTCTGG	0.418													11	65					0	0	0.008291	0	0	
LRBA	987	broad.mit.edu	37	4	151199013	151199013	+	Silent	SNP	G	A	A	rs76608264	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:151199013G>A	uc010ipj.2	-	57	8967	c.8493C>T	c.(8491-8493)TAC>TAT	p.Y2831Y	LRBA_uc010ipi.2_Silent_p.Y353Y|LRBA_uc003ils.3_Silent_p.Y726Y|LRBA_uc003ilt.3_Silent_p.Y1479Y|LRBA_uc003ilu.3_Silent_p.Y2819Y|LRBA_uc003ilr.3_Silent_p.Y251Y	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2831	WD 6.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					ACCTCTGGTCGTAAGACAGCG	0.443													22	125					0	0	0.004656	0	0	
FHDC1	85462	broad.mit.edu	37	4	153897118	153897118	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:153897118G>A	uc003inf.2	+	11	2750	c.2675G>A	c.(2674-2676)CGG>CAG	p.R892Q		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	892					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					AAGTCTGTGCGGACCCTGACC	0.672													6	37					0	0	0.001168	0	0	
LRAT	9227	broad.mit.edu	37	4	155665779	155665779	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:155665779G>A	uc003iom.1	+	1	628	c.301G>A	c.(301-303)GTT>ATT	p.V101I	uc003iol.2_Intron|LRAT_uc003ion.1_Missense_Mutation_p.V101I	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	101	Cytoplasmic (By similarity).				response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)	CATCCTGGGCGTTATTGTCAA	0.572													6	26					0	0	0.001168	0	0	
FAM198B	51313	broad.mit.edu	37	4	159092400	159092400	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:159092400G>A	uc003ipp.3	-	2	580	c.128C>T	c.(127-129)GCG>GTG	p.A43V	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Missense_Mutation_p.A43V|FAM198B_uc003ipr.3_Missense_Mutation_p.A43V|FAM198B_uc003ips.2_Missense_Mutation_p.A43V|uc003ipt.1_RNA	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	43	Helical; Signal-anchor for type II membrane protein; (Potential).					Golgi membrane|integral to membrane					0						GATGGCACACGCAGTGCCCAG	0.642													4	51					0	0	0.009096	0	0	
GLRA3	8001	broad.mit.edu	37	4	175649729	175649729	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:175649729C>T	uc003ity.1	-	4	891	c.388G>A	c.(388-390)GAT>AAT	p.D130N	GLRA3_uc003itz.1_Missense_Mutation_p.D130N	NM_006529	NP_006520	O75311	GLRA3_HUMAN	glycine receptor, alpha 3 isoform a	130	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(3)	3		Prostate(90;0.00601)|Breast(14;0.0091)|Melanoma(52;0.00959)|Renal(120;0.0183)|all_neural(102;0.0891)|all_hematologic(60;0.107)		all cancers(43;4.99e-18)|Epithelial(43;1.18e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.88e-09)|STAD - Stomach adenocarcinoma(60;0.00442)|GBM - Glioblastoma multiforme(59;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0421)	Glycine(DB00145)	AAGAACAAATCAGGTTTCCAA	0.408													13	82					0	0	0.001855	0	0	
ODZ3	55714	broad.mit.edu	37	4	183713497	183713497	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr4:183713497C>T	uc003ivd.1	+	25	5709	c.5672C>T	c.(5671-5673)GCC>GTC	p.A1891V		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1891	YD 7.|Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CGCCTGTCTGCCATCACCATG	0.522													12	51					0	0	0.010729	0	0	
AHRR	57491	broad.mit.edu	37	5	427768	427768	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:427768C>A	uc003jav.2	+	8	781	c.737C>A	c.(736-738)GCT>GAT	p.A246D	AHRR_uc003jaw.2_Intron|AHRR_uc010isy.2_Intron|AHRR_uc010isz.2_Intron|AHRR_uc003jax.2_Intron|AHRR_uc003jay.2_Intron	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			GGGTCACAGGCTTGGCAGCTG	0.512													15	60					1.99824e-07	2.17485e-07	0.004990	1	0	
AHRR	57491	broad.mit.edu	37	5	434269	434269	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:434269G>A	uc003jav.2	+	12	1524	c.1480G>A	c.(1480-1482)GGT>AGT	p.G494S	AHRR_uc003jaw.2_Missense_Mutation_p.G472S|AHRR_uc010isy.2_Missense_Mutation_p.G322S|AHRR_uc010isz.2_Missense_Mutation_p.G472S|AHRR_uc003jax.2_Missense_Mutation_p.G235S|AHRR_uc003jay.2_Missense_Mutation_p.G332S|AHRR_uc003jaz.2_Missense_Mutation_p.G93S	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	476					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			GCGGGATGTCGGTGAGGACCA	0.657													9	28					0	0	0.004482	0	0	
SLC9A3	6550	broad.mit.edu	37	5	482775	482775	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:482775C>T	uc003jbe.2	-	7	1356	c.1244G>A	c.(1243-1245)CGC>CAC	p.R415H	SLC9A3_uc011clx.1_Missense_Mutation_p.R415H	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	415						cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CACGGCCCCGCGCAGGCCCCC	0.607													7	26					0	0	0.003080	0	0	
SLC6A3	6531	broad.mit.edu	37	5	1409934	1409934	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:1409934G>A	uc003jck.2	-	10	1421	c.1300C>T	c.(1300-1302)CTC>TTC	p.L434F		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	434					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	TCATCGATGAGCCCGGTGATC	0.617													6	50					0	0	0.001168	0	0	
IRX1	79192	broad.mit.edu	37	5	3599501	3599501	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:3599501A>G	uc003jde.2	+	2	491	c.439A>G	c.(439-441)AAC>GAC	p.N147D		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	147	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GGCCTGGCTCAACGAGCACCG	0.632													10	64					0	0	0.008291	0	0	
ADAMTS16	170690	broad.mit.edu	37	5	5232611	5232611	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:5232611G>A	uc003jdl.2	+	12	1970	c.1832G>A	c.(1831-1833)CGC>CAC	p.R611H	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R611H|ADAMTS16_uc010itk.1_5'Flank	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	611	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CATAGGAGTCGCCTCTGCACC	0.572													5	78					0	0	0.000602	0	0	
Unknown	0	broad.mit.edu	37	5	17354466	17354466	+	RNA	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:17354466C>T	uc003jfy.2	-	1		c.263G>A			uc003jfz.2_RNA					full-length cDNA clone CS0DC022YF01 of Neuroblastoma Cot 25-normalized of Homo sapiens (human).																		GTTGATCTGGCGGTTGATGGC	0.567													6	33					0	0	0.001984	0	0	
CDH10	1008	broad.mit.edu	37	5	24505238	24505238	+	Missense_Mutation	SNP	A	C	C	rs13174039		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:24505238A>C	uc003jgr.1	-	8	1708	c.1376T>G	c.(1375-1377)GTT>GGT	p.V459G	CDH10_uc011cnu.1_Intron	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	459	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AGCAGCAATAACAGTAAGATT	0.294										HNSCC(23;0.051)			11	53					0	0	0.008291	0	0	
PDZD2	23037	broad.mit.edu	37	5	32058080	32058080	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:32058080G>A	uc003jhl.2	+	12	2459	c.2071G>A	c.(2071-2073)GCC>ACC	p.A691T	PDZD2_uc003jhm.2_Missense_Mutation_p.A691T|PDZD2_uc011cnx.1_Missense_Mutation_p.A517T	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	691					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GAGCAGATCCGCCTCCCCGAA	0.572													7	33					0	0	0.001984	0	0	
DAB2	1601	broad.mit.edu	37	5	39382876	39382876	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:39382876C>T	uc003jlx.2	-	10	1716	c.1185G>A	c.(1183-1185)CCG>CCA	p.P395P	DAB2_uc003jlw.2_Silent_p.P374P	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	395					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			CAAAAGGGTTCGGGGAGGATT	0.512													15	66					0	0	0.004007	0	0	
PTGER4	5734	broad.mit.edu	37	5	40681632	40681632	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:40681632G>A	uc003jlz.2	+	2	1129	c.537G>A	c.(535-537)ACG>ACA	p.T179T		NM_000958	NP_000949	P35408	PE2R4_HUMAN	prostaglandin E receptor 4, subtype EP4	179	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity			lung(2)	2						CCAACGTGACGGCGCACGCCG	0.632													13	42					0	0	0.013537	0	0	
C5orf34	375444	broad.mit.edu	37	5	43506054	43506054	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:43506054G>A	uc003jnz.1	-	5	1045	c.728C>T	c.(727-729)TCT>TTT	p.S243F	C5orf34_uc011cpx.1_Missense_Mutation_p.S129F	NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	243										breast(1)	1	Lung NSC(6;2.07e-05)					GGCAGCCACAGACCAGCACTG	0.413													24	100					0	0	0.003330	0	0	
GZMA	3001	broad.mit.edu	37	5	54404137	54404137	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:54404137A>G	uc003jpm.2	+	4	579	c.542A>G	c.(541-543)GAT>GGT	p.D181G		NM_006144	NP_006135	P12544	GRAA_HUMAN	granzyme A precursor	181	Peptidase S1.				cleavage of lamin|cytolysis|immune response|negative regulation of DNA binding|negative regulation of endodeoxyribonuclease activity|negative regulation of oxidoreductase activity|positive regulation of apoptosis	extracellular region|immunological synapse|nucleus	protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				GTCTGCAATGATCGAAATCAC	0.428													15	44					0	0	0.003163	0	0	
MAST4	375449	broad.mit.edu	37	5	66456371	66456371	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:66456371C>T	uc003jut.1	+	26	3237	c.3169C>T	c.(3169-3171)CGG>TGG	p.R1057W	MAST4_uc003juw.2_Missense_Mutation_p.R985W	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1249						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		CTATAAGAGCCGGATGGTGAG	0.398													19	91					0	0	0.007413	0	0	
RAD17	5884	broad.mit.edu	37	5	68687822	68687822	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:68687822A>G	uc003jwo.2	+	10	1266	c.1204A>G	c.(1204-1206)AAA>GAA	p.K402E	RAD17_uc003jwg.2_Missense_Mutation_p.K391E|RAD17_uc003jwh.2_Missense_Mutation_p.K391E|RAD17_uc003jwi.2_Missense_Mutation_p.K391E|RAD17_uc003jwj.2_Missense_Mutation_p.K391E|RAD17_uc003jwk.2_Missense_Mutation_p.K391E|RAD17_uc003jwl.2_Missense_Mutation_p.K391E|RAD17_uc003jwm.2_Missense_Mutation_p.K226E|RAD17_uc003jwn.2_Missense_Mutation_p.K305E|RAD17_uc003jwp.2_5'Flank	NM_133339	NP_579917	O75943	RAD17_HUMAN	RAD17 homolog isoform 2	402					cell cycle|DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint|mitotic cell cycle checkpoint|negative regulation of DNA replication|regulation of phosphorylation	nucleoplasm	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)		AGCTTTGGGGAAAATTCTATA	0.294								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					15	56					0	0	0.004990	0	0	
ZNF366	167465	broad.mit.edu	37	5	71756247	71756247	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:71756247G>A	uc003kce.1	-	2	1263	c.1077C>T	c.(1075-1077)CAC>CAT	p.H359H		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	359	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		GCCCACTGGCGTGCTTGGCTT	0.662													6	28					0	0	0.001984	0	0	
GFM2	84340	broad.mit.edu	37	5	74028900	74028900	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:74028900G>A	uc003kdh.1	-	16	1838	c.1534C>T	c.(1534-1536)CTT>TTT	p.L512F	GFM2_uc003kdi.1_Missense_Mutation_p.L465F|GFM2_uc010izj.1_Missense_Mutation_p.L544F|GFM2_uc010izk.1_RNA	NM_032380	NP_115756	Q969S9	RRF2M_HUMAN	mitochondrial elongation factor G2 isoform 1	512					mitochondrial translation|ribosome disassembly	mitochondrion	GTP binding|GTPase activity				0		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.86e-56)		TCACGCTGAAGACATTTCAAC	0.289													10	67					0	0	0.013537	0	0	
COL4A3BP	10087	broad.mit.edu	37	5	74698880	74698880	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:74698880C>A	uc011csu.1	-	9	1356	c.934G>T	c.(934-936)GGC>TGC	p.G312C	COL4A3BP_uc003kds.2_Missense_Mutation_p.G312C|COL4A3BP_uc003kdt.2_Missense_Mutation_p.G440C|COL4A3BP_uc003kdu.2_Missense_Mutation_p.G312C	NM_005713	NP_005704	Q9Y5P4	C43BP_HUMAN	alpha 3 type IV collagen binding protein isoform	312					ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)		CTGTTAGGGCCTTCCTATTCC	0.333													5	55					1.23904e-05	1.32406e-05	0.000602	1	0	
CAMK4	814	broad.mit.edu	37	5	110560283	110560283	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:110560283C>T	uc011cvj.1	+	2	201	c.102C>T	c.(100-102)ATC>ATT	p.I34I	CAMK4_uc003kpf.2_Silent_p.I34I|CAMK4_uc010jbv.2_5'UTR	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	34					activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		ATTACTGGATCGACGGCTCCA	0.687													4	19					0	0	0.009096	0	0	
APC	324	broad.mit.edu	37	5	112177857	112177857	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:112177857A>G	uc010jby.2	+	16	6946	c.6566A>G	c.(6565-6567)AAA>AGA	p.K2189R	APC_uc011cvt.1_Missense_Mutation_p.K2171R|APC_uc003kpz.3_Missense_Mutation_p.K2189R|APC_uc003kpy.3_Missense_Mutation_p.K2189R|APC_uc010jbz.2_Missense_Mutation_p.K1906R|APC_uc010jca.2_Missense_Mutation_p.K1489R	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	2189	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		AAAGGAATCAAAGGAGGAAAA	0.343		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			11	59					0	0	0.010729	0	0	
CHSY3	337876	broad.mit.edu	37	5	129241210	129241210	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:129241210G>A	uc003kvd.2	+	1	688	c.688G>A	c.(688-690)GAC>AAC	p.D230N		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	230	Lumenal (Potential).|Pro-rich.					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		ACCGGGTGTGGACGACTCCTA	0.612													18	62					0	0	0.008871	0	0	
TRPC7	57113	broad.mit.edu	37	5	135549172	135549172	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:135549172T>G	uc003lbn.1	-	11	2540	c.2537A>C	c.(2536-2538)AAG>ACG	p.K846T	TRPC7_uc010jef.1_Missense_Mutation_p.K783T|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.K777T|TRPC7_uc010jei.1_Missense_Mutation_p.K722T|TRPC7_uc010jej.1_Missense_Mutation_p.K398T	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	847	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GTTTAAGTTCTTTCCAAACTT	0.488													7	24					0	0	0.001984	0	0	
TRPC7	57113	broad.mit.edu	37	5	135692820	135692820	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:135692820C>T	uc003lbn.1	-	1	256	c.253G>A	c.(253-255)GTG>ATG	p.V85M	TRPC7_uc010jef.1_Missense_Mutation_p.V77M|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.V77M|TRPC7_uc010jei.1_Missense_Mutation_p.V77M|TRPC7_uc010jej.1_Translation_Start_Site	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	86	Cytoplasmic (Potential).|ANK 2.				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TCGTTGCCCACGGCCAGCTGC	0.597													12	86					0	0	0.002450	0	0	
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	5	139865292	139865292	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:139865292C>A	uc003lfs.1	+	13	2241	c.2117C>A	c.(2116-2118)CCT>CAT	p.P706H	ANKHD1_uc003lfq.1_Missense_Mutation_p.P725H|ANKHD1_uc003lfr.2_Missense_Mutation_p.P706H|ANKHD1_uc003lft.1_Missense_Mutation_p.P186H|ANKHD1_uc003lfu.1_Missense_Mutation_p.P186H|ANKHD1_uc003lfv.1_Missense_Mutation_p.P36H	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	706						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTCAGCTCCCTCCACCTTCT	0.358													12	51					5.50884e-06	5.90471e-06	0.013537	1	0	
PCDHA1	56147	broad.mit.edu	37	5	140166076	140166076	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140166076G>A	uc003lhb.2	+	1	201	c.201G>A	c.(199-201)GCG>GCA	p.A67A	PCDHA1_uc003lha.2_Silent_p.A67A|PCDHA1_uc003lgz.2_Silent_p.A67A	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	67	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCGGGTGGCGTCCAAAACAC	0.602													22	86					0	0	0.014323	0	0	
PCDHA4	56144	broad.mit.edu	37	5	140188623	140188623	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140188623C>T	uc003lhi.2	+	1	1952	c.1851C>T	c.(1849-1851)GGC>GGT	p.G617G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.G617G|PCDHA4_uc011daa.1_Silent_p.G617G	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	617	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACTGGTGGCGCGCGCATCC	0.682													12	70					0	0	0.001855	0	0	
PCDHA7	56141	broad.mit.edu	37	5	140215888	140215888	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140215888G>A	uc003lhq.2	+	1	1920	c.1920G>A	c.(1918-1920)ACG>ACA	p.T640T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.T640T	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	640	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGATGAGACGGACGCACCGC	0.652													14	60					0	0	0.002450	0	0	
PCDHA11	56138	broad.mit.edu	37	5	140249016	140249016	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140249016G>A	uc003lia.2	+	1	1186	c.328G>A	c.(328-330)GTG>ATG	p.V110M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.V110M	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	110	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAGGTGATCGTGGACAGGCC	0.552													43	181					0	0	0.008740	0	0	
PCDHB17	54661	broad.mit.edu	37	5	140537186	140537186	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140537186G>A	uc003lis.2	+	1	1607	c.1607G>A	c.(1606-1608)CGC>CAC	p.R536H		NR_001280				SubName: Full=Protocadherin-psi1;												0						GCCTCAGACCGCGGTTCTCCG	0.647													15	68					0	0	0.002450	0	0	
PCDHB18	54660	broad.mit.edu	37	5	140615452	140615452	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140615452C>T	uc003ljc.1	+	1	1515	c.1167C>T	c.(1165-1167)TCC>TCT	p.S389S		NR_001281				SubName: Full=Similar to protocadherin-3 (Pcdh3);											ovary(1)	1						TGCTGGTCTCCGACGTCAATG	0.562													28	133					0	0	0.009535	0	0	
PCDHGA8	9708	broad.mit.edu	37	5	140773918	140773918	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140773918T>C	uc003lkd.1	+	1	2436	c.1538T>C	c.(1537-1539)GTC>GCC	p.V513A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.V513A	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	513	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACACCGGTGTCCTGTATGCG	0.592													16	50					0	0	0.003163	0	0	
PCDHGB5	56101	broad.mit.edu	37	5	140779258	140779258	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:140779258C>T	uc003lkf.1	+	1	1564	c.1564C>T	c.(1564-1566)CGC>TGC	p.R522C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.R522C	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	522	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAGCAGCTGCGCACCTTCGA	0.652													5	16					0	0	0.001168	0	0	
MYOZ3	91977	broad.mit.edu	37	5	150051413	150051413	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:150051413G>A	uc003lss.2	+	5	954	c.367G>A	c.(367-369)GCC>ACC	p.A123T	MYOZ3_uc003lsr.2_Missense_Mutation_p.A123T	NM_001122853	NP_001116325	Q8TDC0	MYOZ3_HUMAN	myozenin 3	123						sarcomere	protein binding			skin(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCCCGAGGGCGCCCACCCTGC	0.746													5	12					0	0	0.000602	0	0	
GRIA1	2890	broad.mit.edu	37	5	153085479	153085479	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:153085479C>T	uc003lva.3	+	11	2040	c.1675C>T	c.(1675-1677)CGC>TGC	p.R559C	GRIA1_uc003luy.3_Missense_Mutation_p.R559C|GRIA1_uc003luz.3_Missense_Mutation_p.R464C|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.R479C|GRIA1_uc011dcx.1_Missense_Mutation_p.R490C|GRIA1_uc011dcy.1_Missense_Mutation_p.R569C|GRIA1_uc011dcz.1_Missense_Mutation_p.R569C|GRIA1_uc010jia.1_Missense_Mutation_p.R539C	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	559	Cytoplasmic (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CCTGGTCAGCCGCTTCAGTCC	0.483													23	79					0	0	0.002780	0	0	
FGFR4	2264	broad.mit.edu	37	5	176524326	176524326	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:176524326G>A	uc003mfl.2	+	17	2354	c.2187G>A	c.(2185-2187)GCG>GCA	p.A729A	FGFR4_uc003mfm.2_Silent_p.A729A|FGFR4_uc011dfu.1_Silent_p.A661A|FGFR4_uc003mfo.2_Silent_p.A689A	NM_002011	NP_002002	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4 isoform 1	729	Protein kinase.|Cytoplasmic (Potential).				insulin receptor signaling pathway|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity	p.A689A(1)|p.A729A(1)		lung(11)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|prostate(1)	16	all_cancers(89;5.93e-05)|Renal(175;0.000269)|Lung NSC(126;0.0088)|all_lung(126;0.0142)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Palifermin(DB00039)	GGCACGCAGCGCCCTCCCAGA	0.687										TSP Lung(9;0.080)			4	12					0	0	0.009096	0	0	
HNRNPH1	3187	broad.mit.edu	37	5	179042578	179042578	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:179042578T>A	uc003mkf.3	-	13	1425	c.1319A>T	c.(1318-1320)AAC>ATC	p.N440I	HNRNPH1_uc011dgn.1_Missense_Mutation_p.N150I|HNRNPH1_uc003mkg.3_Missense_Mutation_p.N348I|HNRNPH1_uc003mke.3_Missense_Mutation_p.N440I|HNRNPH1_uc003mkh.3_Missense_Mutation_p.N440I	NM_005520	NP_005511	P31943	HNRH1_HUMAN	heterogeneous nuclear ribonucleoprotein H1	440					regulation of RNA splicing	actin cytoskeleton|catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|poly(U) RNA binding|protein binding				0						ATCACTGGAGTTTTCCTGTAA	0.274													7	26					0	0	0.003080	0	0	
MGAT4B	11282	broad.mit.edu	37	5	179226099	179226099	+	Missense_Mutation	SNP	G	A	A	rs146600579		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:179226099G>A	uc003mks.2	-	11	1541	c.1172C>T	c.(1171-1173)GCG>GTG	p.A391V	MGAT4B_uc003mkp.2_Missense_Mutation_p.A245V|MGAT4B_uc003mkq.2_Silent_p.G166G|MGAT4B_uc003mkr.2_Missense_Mutation_p.A406V|MIR1229_hsa-mir-1229|MI0006319_5'Flank	NM_014275	NP_055090	Q9UQ53	MGT4B_HUMAN	alpha-1,3-mannosyl-glycoprotein	391	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding				0	all_cancers(89;0.000201)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0525)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTTCCGCAGCGCCTGCTTTCC	0.622													19	65					0	0	0.006122	0	0	
TBC1D9B	23061	broad.mit.edu	37	5	179290483	179290483	+	Missense_Mutation	SNP	C	T	T	rs151265651	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:179290483C>T	uc003mlh.2	-	22	3755	c.3718G>A	c.(3718-3720)GCC>ACC	p.A1240T	TBC1D9B_uc003mli.2_Missense_Mutation_p.A1223T|TBC1D9B_uc003mlj.2_Missense_Mutation_p.A1222T|TBC1D9B_uc003mlf.2_Missense_Mutation_p.A314T|TBC1D9B_uc003mlg.2_Missense_Mutation_p.A399T|TBC1D9B_uc011dgv.1_Missense_Mutation_p.A399T	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	1240						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGGTCACTGGCGGTGCTGAAC	0.562													7	51					0	0	0.001984	0	0	
MGAT1	4245	broad.mit.edu	37	5	180219400	180219400	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr5:180219400C>T	uc003mmg.3	-	2	1067	c.572G>A	c.(571-573)TGG>TAG	p.W191*	MGAT1_uc010jlf.2_Nonsense_Mutation_p.W191*|MGAT1_uc010jlg.2_Nonsense_Mutation_p.W191*|MGAT1_uc003mmh.3_Nonsense_Mutation_p.W191*|MGAT1_uc010jlh.2_Nonsense_Mutation_p.W191*|MGAT1_uc003mmi.3_Nonsense_Mutation_p.W191*	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	191	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCCCAGCGCCCAGCGGTAGTG	0.677													9	45					0	0	0.004482	0	0	
RIPK1	8737	broad.mit.edu	37	6	3077208	3077208	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:3077208C>A	uc010jni.2	+	2	383	c.151C>A	c.(151-153)CCC>ACC	p.P51T	RIPK1_uc003muv.3_5'UTR|RIPK1_uc003muw.3_Intron|RIPK1_uc011dhs.1_Missense_Mutation_p.P51T|RIPK1_uc003mux.2_Missense_Mutation_p.P51T	NM_003804	NP_003795	Q13546	RIPK1_HUMAN	receptor (TNFRSF)-interacting serine-threonine	51	Protein kinase.				activation of caspase activity|activation of JUN kinase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|induction of necroptosis by extracellular signals|innate immune response|MyD88-independent toll-like receptor signaling pathway|positive regulation of anti-apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|protein autophosphorylation|regulation of ATP:ADP antiporter activity|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|death-inducing signaling complex|endosome membrane|mitochondrion|receptor complex	ATP binding|death domain binding|death receptor binding|protein serine/threonine kinase activity			large_intestine(3)|lung(1)|skin(1)	5	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				GTACAAGGGGCCCAACTGCAT	0.582													7	36					8.12818e-05	8.54791e-05	0.001984	1	0	
HIVEP1	3096	broad.mit.edu	37	6	12124092	12124092	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:12124092A>G	uc003nac.2	+	4	4243	c.4064A>G	c.(4063-4065)AAT>AGT	p.N1355S	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1355					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				AATACTCTGAATGTTCCTGGA	0.428													11	52					0	0	0.008291	0	0	
HIST1H3C	8352	broad.mit.edu	37	6	26046023	26046023	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:26046023C>T	uc003nfv.2	+	1	385	c.385C>T	c.(385-387)CGT>TGT	p.R129C	HIST1H2BB_uc003nfu.2_5'Flank	NM_003531	NP_003522	P68431	H31_HUMAN	histone cluster 1, H3c	129					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						CCAGCTGGCACGTCGCATCCG	0.498													7	43					0	0	0.001984	0	0	
BTN2A1	11120	broad.mit.edu	37	6	26468713	26468713	+	Missense_Mutation	SNP	A	G	G	rs149725979	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:26468713A>G	uc003nib.1	+	8	1732	c.1520A>G	c.(1519-1521)AAT>AGT	p.N507S	BTN2A1_uc003nic.1_3'UTR|BTN2A1_uc003nid.1_Missense_Mutation_p.N355S|BTN2A1_uc011dko.1_Missense_Mutation_p.N446S|BTN2A1_uc010jqk.1_Intron	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	507	Cytoplasmic (Potential).				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						ACAGGAGCCAATGGGGTCACG	0.567													14	71					0	0	0.002450	0	0	
BTN2A1	11120	broad.mit.edu	37	6	26468722	26468722	+	Missense_Mutation	SNP	C	T	T	rs145758816	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:26468722C>T	uc003nib.1	+	8	1741	c.1529C>T	c.(1528-1530)ACG>ATG	p.T510M	BTN2A1_uc003nic.1_3'UTR|BTN2A1_uc003nid.1_Missense_Mutation_p.T358M|BTN2A1_uc011dko.1_Missense_Mutation_p.T449M|BTN2A1_uc010jqk.1_Intron	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1	510	Cytoplasmic (Potential).				lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						AATGGGGTCACGGTGCCTGAA	0.567													13	67					0	0	0.013537	0	0	
SCAND3	114821	broad.mit.edu	37	6	28540669	28540669	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:28540669G>A	uc003nlo.2	-	4	3615	c.2997C>T	c.(2995-2997)TGC>TGT	p.C999C		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	999					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						gatgaatgaagcaatgtgttg	0													25	80					0	0	0.003954	0	0	
OR11A1	26531	broad.mit.edu	37	6	29394924	29394924	+	Silent	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:29394924G>T	uc003nmg.2	-	1	586	c.495C>A	c.(493-495)GCC>GCA	p.A165A		NM_013937	NP_039225	Q9GZK7	O11A1_HUMAN	olfactory receptor, family 11, subfamily A,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACCTCAGCTGGGCCACCAGGG	0.572													9	26					9.70103e-10	1.07462e-09	0.008291	1	0	
TRIM26	7726	broad.mit.edu	37	6	30166814	30166814	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:30166814G>T	uc003npr.2	-	3	276	c.67C>A	c.(67-69)CTG>ATG	p.L23M	TRIM26_uc003nps.2_Missense_Mutation_p.L23M|TRIM26_uc010jry.2_Translation_Start_Site|TRIM26_uc003npt.2_Missense_Mutation_p.L23M|TRIM26_uc003npu.1_Missense_Mutation_p.L23M	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	23	RING-type.						DNA binding|zinc ion binding			ovary(2)|lung(1)	3						GGGTCCCGCAGGTAATCAAGA	0.612													5	35					3.59834e-05	3.81827e-05	0.001168	1	0	
MUC21	394263	broad.mit.edu	37	6	30955787	30955787	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:30955787T>G	uc003nsh.2	+	3	1768	c.1517T>G	c.(1516-1518)CTG>CGG	p.L506R	MUC21_uc003nsi.1_RNA	NM_001010909	NP_001010909	Q5SSG8	MUC21_HUMAN	mucin 21 precursor	506	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)|skin(1)	2						AGAAACAGCCTGTCCCTGAGA	0.522													9	42					0	0	0.004482	0	0	
NFKBIL1	4795	broad.mit.edu	37	6	31525449	31525449	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:31525449G>A	uc003nub.2	+	3	498	c.379G>A	c.(379-381)GCC>ACC	p.A127T	NFKBIL1_uc011dnr.1_Missense_Mutation_p.A104T|NFKBIL1_uc011dns.1_Missense_Mutation_p.A104T|NFKBIL1_uc011dnt.1_RNA|NFKBIL1_uc003nuc.2_Missense_Mutation_p.A127T	NM_005007	NP_004998	Q9UBC1	IKBL1_HUMAN	nuclear factor of kappa light polypeptide gene	127	ANK 2.				cytoplasmic sequestering of transcription factor		protein binding				0						CTGTCCCTCCGCCATGGGAAT	0.577													7	31					0	0	0.001984	0	0	
RXRB	6257	broad.mit.edu	37	6	33163388	33163388	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:33163388G>A	uc003odb.2	-	7	1394	c.1215C>T	c.(1213-1215)CGC>CGT	p.R405R	RXRB_uc003odc.2_Silent_p.R405R|RXRB_uc003odd.2_Silent_p.R309R|RXRB_uc011dqr.1_Silent_p.R215R|RXRB_uc011dqs.1_3'UTR	NM_021976	NP_068811	P28702	RXRB_HUMAN	retinoid X receptor, beta	405	Ligand-binding (By similarity).				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			ovary(3)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Bexarotene(DB00307)|Etretinate(DB00926)|Tazarotene(DB00799)|Tretinoin(DB00755)	GGGCTGAGTTGCGGTGCACGT	0.572													10	40					0	0	0.008291	0	0	
ZBTB9	221504	broad.mit.edu	37	6	33424018	33424018	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:33424018G>A	uc003oeq.2	+	2	1409	c.1141G>A	c.(1141-1143)GGA>AGA	p.G381R		NM_152735	NP_689948	Q96C00	ZBTB9_HUMAN	zinc finger and BTB domain containing 9	381	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCCTGCAGATGGAAAACGCTT	0.597													4	28					0	0	0.009096	0	0	
SPDEF	25803	broad.mit.edu	37	6	34512112	34512112	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:34512112G>A	uc003ojq.1	-	2	536	c.121C>T	c.(121-123)CGG>TGG	p.R41W	SPDEF_uc011dsq.1_Missense_Mutation_p.R41W	NM_012391	NP_036523	O95238	SPDEF_HUMAN	SAM pointed domain containing ets transcription	41					negative regulation of survival gene product expression|negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(3)|ovary(1)|central_nervous_system(1)	5						CTCCAGTCCCGTCTCTCGAGA	0.672													8	18					0	0	0.003080	0	0	
ZNF76	7629	broad.mit.edu	37	6	35259412	35259412	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:35259412C>T	uc003oki.1	+	9	1034	c.829C>T	c.(829-831)CGC>TGC	p.R277C	ZNF76_uc011dsy.1_Missense_Mutation_p.R277C|ZNF76_uc011dsz.1_Missense_Mutation_p.R277C|ZNF76_uc003okj.1_Missense_Mutation_p.R277C	NM_003427	NP_003418	P36508	ZNF76_HUMAN	zinc finger protein 76 (expressed in testis)	277	C2H2-type 4.				regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTACATGTGCGCACCCACAC	0.602													11	49					0	0	0.010729	0	0	
STK38	11329	broad.mit.edu	37	6	36475326	36475326	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:36475326A>G	uc003omg.2	-	7	1311	c.723T>C	c.(721-723)CAT>CAC	p.H241H	STK38_uc003omh.2_Silent_p.H241H|STK38_uc003omi.2_Silent_p.H241H	NM_007271	NP_009202	Q15208	STK38_HUMAN	serine/threonine kinase 38	241	Protein kinase.				intracellular protein kinase cascade|negative regulation of MAP kinase activity	cytoplasm|MLL5-L complex	ATP binding|magnesium ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6						ATTCTGTCCTATGTGCTTTTT	0.423													55	219					0	0	0.014410	0	0	
MTCH1	23787	broad.mit.edu	37	6	36946332	36946332	+	Silent	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:36946332G>T	uc003ond.1	-	3	462	c.462C>A	c.(460-462)CCC>CCA	p.P154P	MTCH1_uc003onc.1_Silent_p.P154P|MTCH1_uc010jwo.1_RNA|MTCH1_uc003one.3_Silent_p.P154P|MTCH1_uc011dtt.1_5'UTR	NM_014341	NP_055156	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier homolog 1	154	Solcar 1.				activation of caspase activity|neuronal ion channel clustering|positive regulation of apoptosis|regulation of signal transduction|transport	integral to membrane|mitochondrial inner membrane	protein binding				0						ACATCAGCCGGGGACTCAGGC	0.557													13	94					1.15088e-07	1.25518e-07	0.004007	1	0	
MDGA1	266727	broad.mit.edu	37	6	37613720	37613720	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:37613720G>A	uc003onu.1	-	12	3416	c.2237C>T	c.(2236-2238)CCG>CTG	p.P746L	MDGA1_uc003onv.1_Missense_Mutation_p.P15L	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	746					brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						TGAAAGGTTCGGAGAGTTGAT	0.547													5	31					0	0	0.000602	0	0	
ZFAND3	60685	broad.mit.edu	37	6	38084410	38084410	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:38084410C>T	uc003onx.2	+	5	839	c.424C>T	c.(424-426)CGG>TGG	p.R142W		NM_021943	NP_068762	Q9H8U3	ZFAN3_HUMAN	zinc finger, AN1-type domain 3	142							DNA binding|zinc ion binding			ovary(1)	1						GAATACGGAACGGTCCGAGGA	0.498													7	48					0	0	0.001984	0	0	
DAAM2	23500	broad.mit.edu	37	6	39869739	39869739	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:39869739C>T	uc003oow.2	+	25	3289	c.3133C>T	c.(3133-3135)CGC>TGC	p.R1045C	DAAM2_uc003oox.2_Missense_Mutation_p.R1044C	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	1045	DAD.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CAAGCTCAAGCGCAGCCGCAA	0.612													7	40					0	0	0.004482	0	0	
PGC	5225	broad.mit.edu	37	6	41712453	41712453	+	Silent	SNP	A	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:41712453A>T	uc003ora.1	-	2	202	c.153T>A	c.(151-153)GCT>GCA	p.A51A		NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor	51					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GGTACTTCCAAGCAGGATCAT	0.537													5	33					0	0	0.001168	0	0	
BYSL	705	broad.mit.edu	37	6	41900303	41900303	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:41900303C>T	uc003orl.2	+	7	1509	c.1173C>T	c.(1171-1173)GCC>GCT	p.A391A		NM_004053	NP_004044	Q13895	BYST_HUMAN	bystin	391					cell adhesion|female pregnancy|ribosome biogenesis	cytoplasm|nucleolus					0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000473)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCTACAAGGCCGACTTGGCCA	0.592													13	66					0	0	0.013537	0	0	
CUL9	23113	broad.mit.edu	37	6	43166460	43166460	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:43166460C>T	uc003ouk.2	+	12	2992	c.2917C>T	c.(2917-2919)CGT>TGT	p.R973C	CUL9_uc003oul.2_Missense_Mutation_p.R973C|CUL9_uc010jyk.2_Missense_Mutation_p.R125C	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	973					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TGTGCTGTGCCGTGAGGGCAG	0.642													19	101					0	0	0.012319	0	0	
TDRD6	221400	broad.mit.edu	37	6	46656498	46656498	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:46656498C>T	uc003oyj.2	+	1	633	c.633C>T	c.(631-633)CGC>CGT	p.R211R	TDRD6_uc010jze.2_Silent_p.R205R	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	211					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			TGCTGGAGCGCTATCTCACAG	0.647													10	54					0	0	0.006214	0	0	
TDRD6	221400	broad.mit.edu	37	6	46661523	46661523	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:46661523C>T	uc003oyj.2	+	1	5658	c.5658C>T	c.(5656-5658)GGC>GGT	p.G1886G	TDRD6_uc010jze.2_Silent_p.G1880G	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1886					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			TCACAAAAGGCGCCATGGAGC	0.498													10	50					0	0	0.006214	0	0	
EFHC1	114327	broad.mit.edu	37	6	52329890	52329890	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:52329890C>T	uc003pap.3	+	6	1329	c.1114C>T	c.(1114-1116)CGG>TGG	p.R372W	EFHC1_uc011dwv.1_Missense_Mutation_p.R281W|EFHC1_uc011dww.1_Missense_Mutation_p.R353W	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	372						axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					TGTGAGCAAGCGGGAACCACC	0.353													14	32					0	0	0.003163	0	0	
ICK	22858	broad.mit.edu	37	6	52878462	52878462	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:52878462A>G	uc003pbh.2	-	10	1640	c.1150T>C	c.(1150-1152)TCG>CCG	p.S384P	ICK_uc003pbi.2_Missense_Mutation_p.S384P	NM_016513	NP_057597	Q9UPZ9	ICK_HUMAN	intestinal cell kinase	384					intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding			ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)					CTGCTCACCGACTGTGGATGC	0.493													17	97					0	0	0.006122	0	0	
MCART3P	442229	broad.mit.edu	37	6	66498717	66498717	+	RNA	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:66498717A>G	uc011dxw.1	+	1		c.946A>G				NR_026540				Homo sapiens mitochondrial carrier triple repeat 3 pseudogene, mRNA (cDNA clone IMAGE:4821649).												0						TTTTCACTCCACCGGAAATAG	0.468													5	41					0	0	0.001984	0	0	
PHIP	55023	broad.mit.edu	37	6	79752650	79752650	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:79752650A>G	uc003pir.2	-	7	736	c.510T>C	c.(508-510)TAT>TAC	p.Y170Y	PHIP_uc011dyp.1_Silent_p.Y170Y	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	170					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		TCATGTGCTGATACACTGCAG	0.378													18	115					0	0	0.014323	0	0	
TTK	7272	broad.mit.edu	37	6	80751905	80751905	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:80751905A>G	uc003pjc.2	+	22	2634	c.2560A>G	c.(2560-2562)AGG>GGG	p.R854G	TTK_uc003pjb.3_Missense_Mutation_p.R853G	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	854					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.R838fs*4(2)		ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		TGAAAAAAAAAGGGGAAAAAA	0.308													10	39					0	0	0.013537	0	0	
SNAP91	9892	broad.mit.edu	37	6	84417539	84417539	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:84417539G>A	uc011dze.1	-	2	425	c.108C>T	c.(106-108)GGC>GGT	p.G36G	SNAP91_uc003pkb.2_5'UTR|SNAP91_uc003pkc.2_Silent_p.G36G|SNAP91_uc003pkd.2_Silent_p.G36G|SNAP91_uc003pka.2_Silent_p.G36G|SNAP91_uc011dzf.1_5'UTR	NM_014841	NP_055656	O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa homolog	36	ENTH.				clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		TTTTCTTGGGGCCCATTACTT	0.572													13	110					0	0	0.004990	0	0	
C6orf165	154313	broad.mit.edu	37	6	88138405	88138405	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:88138405G>T	uc003plv.2	+	9	1114	c.1022G>T	c.(1021-1023)GGT>GTT	p.G341V	C6orf165_uc003plw.2_Missense_Mutation_p.G153V|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.G341V	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	341										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		ATTGTGGTTGGTGTCCTCAGT	0.408													19	96					1.10513e-12	1.23714e-12	0.014323	1	0	
RRAGD	58528	broad.mit.edu	37	6	90097137	90097137	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:90097137G>A	uc003pnd.3	-	2	604	c.321C>T	c.(319-321)AAC>AAT	p.N107N	RRAGD_uc010kcc.2_Intron	NM_021244	NP_067067	Q9NQL2	RRAGD_HUMAN	Ras-related GTP binding D	107					cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade	lysosome|nucleus	GTP binding|protein heterodimerization activity			ovary(2)|central_nervous_system(1)	3		all_cancers(76;7.01e-07)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00139)		BRCA - Breast invasive adenocarcinoma(108;0.0144)		CAAAGGAGCTGTTGGAAACAT	0.428													34	180					0	0	0.012213	0	0	
MDN1	23195	broad.mit.edu	37	6	90461284	90461284	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:90461284T>G	uc003pnn.1	-	23	3209	c.3093A>C	c.(3091-3093)AAA>AAC	p.K1031N	MDN1_uc003pno.1_Missense_Mutation_p.K450N	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1031					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GCCGACCTCCTTTTGGCTCTG	0.458													6	43					0	0	0.001984	0	0	
CASP8AP2	9994	broad.mit.edu	37	6	90573907	90573907	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:90573907G>A	uc003pnr.2	+	7	2675	c.2479G>A	c.(2479-2481)GCA>ACA	p.A827T	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.A827T|CASP8AP2_uc011dzz.1_Missense_Mutation_p.A827T	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	827					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		CCACAGAATGGCAACTGGTGA	0.433													15	42					0	0	0.002450	0	0	
ASCC3	10973	broad.mit.edu	37	6	101077033	101077033	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:101077033C>T	uc003pqk.2	-	27	4562	c.4233G>A	c.(4231-4233)GTG>GTA	p.V1411V		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1411	Helicase ATP-binding 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TATCAGGAGTCACATCCCCTG	0.423													4	39					0	0	0.009096	0	0	
NR2E1	7101	broad.mit.edu	37	6	108492665	108492665	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:108492665G>A	uc003psg.2	+	2	784	c.29G>A	c.(28-30)CGC>CAC	p.R10H		NM_003269	NP_003260	Q9Y466	NR2E1_HUMAN	nuclear receptor subfamily 2, group E, member 1	10					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(87;8.13e-05)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00866)|Colorectal(196;0.0637)		BRCA - Breast invasive adenocarcinoma(108;0.013)|Epithelial(106;0.0521)|all cancers(137;0.068)|OV - Ovarian serous cystadenocarcinoma(136;0.0689)		ATTTCAGGCCGCATTTTAGAT	0.363													12	80					0	0	0.013537	0	0	
AKD1	221264	broad.mit.edu	37	6	109867151	109867151	+	Silent	SNP	G	A	A	rs151316525		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:109867151G>A	uc003ptn.2	-	26	3221	c.3144C>T	c.(3142-3144)AAC>AAT	p.N1048N	AKD1_uc011eat.1_Silent_p.N127N	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1048					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						CAGCTTGCTCGTTCTCAGAAT	0.348													18	64					0	0	0.004990	0	0	
TRAF3IP2	10758	broad.mit.edu	37	6	111896928	111896928	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:111896928C>T	uc011ebc.1	-	5	1734	c.1119G>A	c.(1117-1119)CCG>CCA	p.P373P	TRAF3IP2_uc003pvd.2_5'Flank|TRAF3IP2_uc003pvg.2_Silent_p.P373P|TRAF3IP2_uc003pvf.2_Silent_p.P373P|TRAF3IP2_uc010kdw.2_Silent_p.P373P|TRAF3IP2_uc010kdx.2_Silent_p.P373P	NM_147686	NP_679211	O43734	CIKS_HUMAN	TRAF3 interacting protein 2 isoform 2	382					intracellular signal transduction|positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular				ovary(2)|central_nervous_system(1)	3		all_cancers(87;7.87e-06)|Acute lymphoblastic leukemia(125;3.61e-09)|all_hematologic(75;2.63e-07)|all_epithelial(87;0.0024)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.033)|all cancers(137;0.0412)|Epithelial(106;0.0732)		CAGCTGGGGACGGAGGCTGGG	0.557													5	51					0	0	0.001168	0	0	
NUS1	116150	broad.mit.edu	37	6	118015303	118015303	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:118015303A>G	uc003pxw.2	+	3	868	c.651A>G	c.(649-651)AGA>AGG	p.R217R		NM_138459	NP_612468	Q96E22	NGBR_HUMAN	nuclear undecaprenyl pyrophosphate synthase 1	217	Cytoplasmic (Potential).				angiogenesis|cell differentiation	integral to membrane	receptor activity|transferase activity, transferring alkyl or aryl (other than methyl) groups			central_nervous_system(1)	1		all_cancers(87;0.0395)|all_epithelial(87;0.0301)		GBM - Glioblastoma multiforme(226;0.02)|OV - Ovarian serous cystadenocarcinoma(136;0.115)|all cancers(137;0.146)		AGCAAAAGAGACCCACAGATT	0.333													17	100					0	0	0.007413	0	0	
C6orf174	387104	broad.mit.edu	37	6	127796990	127796990	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:127796990G>A	uc003qbd.2	-	6	3046	c.2181C>T	c.(2179-2181)CGC>CGT	p.R727R	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	727						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		ACATAAGCACGCGGTTCTCGT	0.667													8	99					0	0	0.004482	0	0	
HIVEP2	3097	broad.mit.edu	37	6	143091558	143091558	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:143091558G>A	uc003qjd.2	-	5	5061	c.4318C>T	c.(4318-4320)CGA>TGA	p.R1440*		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1440					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GAAAGCATTCGCTTGCTACCT	0.517													8	41					0	0	0.003080	0	0	
TIAM2	26230	broad.mit.edu	37	6	155574136	155574136	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:155574136C>T	uc003qqb.2	+	26	5447	c.4174C>T	c.(4174-4176)CGC>TGC	p.R1392C	TIAM2_uc003qqe.2_Missense_Mutation_p.R1392C|TIAM2_uc010kjj.2_Missense_Mutation_p.R954C|TIAM2_uc003qqf.2_Missense_Mutation_p.R768C|TIAM2_uc011efl.1_Missense_Mutation_p.R728C|TIAM2_uc003qqg.2_Missense_Mutation_p.R704C|TIAM2_uc003qqh.2_Missense_Mutation_p.R317C	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1392	PH 2.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		ATTTAAATTCCGCTGGTTGAT	0.488													6	23					0	0	0.001984	0	0	
TFB1M	51106	broad.mit.edu	37	6	155581523	155581523	+	Silent	SNP	G	A	A	rs149796947	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:155581523G>A	uc003qqj.3	-	6	742	c.678C>T	c.(676-678)GGC>GGT	p.G226G	TFB1M_uc003qqk.2_Intron	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	226					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		AGTGCACCACGCCCACGTCCA	0.438													11	42					0	0	0.010729	0	0	
SMOC2	64094	broad.mit.edu	37	6	168999659	168999659	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:168999659C>T	uc003qws.1	+	8	819	c.799C>T	c.(799-801)CGC>TGC	p.R267C	SMOC2_uc003qwr.1_Missense_Mutation_p.R278C	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	267	Thyroglobulin type-1 2.				signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		GGACACGGGGCGCCCCATTCC	0.652													3	9					0	0	0.004672	0	0	
PRKAR1B	5575	broad.mit.edu	37	7	618981	618981	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:618981G>A	uc003siu.1	-	10	909	c.803C>T	c.(802-804)GCG>GTG	p.A268V	PRKAR1B_uc003siv.2_Missense_Mutation_p.A268V|PRKAR1B_uc003siw.1_Missense_Mutation_p.A268V|PRKAR1B_uc003six.1_RNA	NM_002735	NP_002726	P31321	KAP1_HUMAN	protein kinase, cAMP-dependent, regulatory, type	268	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)		CAGCGCATCCGCCACGGTCAG	0.607													11	49					0	0	0.010729	0	0	
INTS1	26173	broad.mit.edu	37	7	1523451	1523451	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:1523451G>A	uc003skn.2	-	26	3569	c.3468C>T	c.(3466-3468)AGC>AGT	p.S1156S	INTS1_uc003skp.1_Silent_p.S503S	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	1156					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CTGTCTCCCCGCTGCTCCAGC	0.662													8	34					0	0	0.003080	0	0	
TMEM184A	202915	broad.mit.edu	37	7	1590549	1590549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:1590549C>T	uc003skv.3	-	3	606	c.289G>A	c.(289-291)GTG>ATG	p.V97M	TMEM184A_uc003skt.3_Translation_Start_Site|TMEM184A_uc003skw.3_Translation_Start_Site	NM_001097620	NP_001091089	Q6ZMB5	T184A_HUMAN	transmembrane protein 184A	97	Helical; (Potential).					integral to membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;5.88e-15)		TAGATGGGCACGATGAGGAGC	0.612													5	22					0	0	0.001168	0	0	
AMZ1	155185	broad.mit.edu	37	7	2752350	2752350	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:2752350C>T	uc003smr.1	+	7	1696	c.1335C>T	c.(1333-1335)GGC>GGT	p.G445G	AMZ1_uc003sms.1_3'UTR|AMZ1_uc011jwa.1_Silent_p.G194G	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	445							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)		TGTTCACGGGCCAGCTCCCGG	0.677													5	27					0	0	0.000602	0	0	
PMS2	5395	broad.mit.edu	37	7	6026895	6026895	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:6026895C>T	uc003spl.2	-	11	1588	c.1501G>A	c.(1501-1503)GTG>ATG	p.V501M	PMS2_uc003spj.2_Missense_Mutation_p.V395M|PMS2_uc003spk.2_Missense_Mutation_p.V366M|PMS2_uc011jwl.1_Missense_Mutation_p.V366M|PMS2_uc010ktg.2_Missense_Mutation_p.V190M|PMS2_uc010kte.2_Intron|PMS2_uc010ktf.1_Missense_Mutation_p.V501M	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	501					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		TCAGAATCCACGGAAGTGCTG	0.627			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				17	71					0	0	0.004990	0	0	
PMS2	5395	broad.mit.edu	37	7	6042145	6042145	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:6042145A>G	uc003spl.2	-	5	563	c.476T>C	c.(475-477)GTG>GCG	p.V159A	PMS2_uc003spj.2_Missense_Mutation_p.V53A|PMS2_uc003spk.2_Missense_Mutation_p.V24A|PMS2_uc011jwl.1_Missense_Mutation_p.V24A|PMS2_uc010ktg.2_5'UTR|PMS2_uc010kte.2_Missense_Mutation_p.V159A|PMS2_uc010ktf.1_Missense_Mutation_p.V159A	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	159					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		TAACTGCTGCACGCTGACTGT	0.453			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				19	115					0	0	0.007413	0	0	
THSD7A	221981	broad.mit.edu	37	7	11441596	11441596	+	Splice_Site	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:11441596C>A	uc003ssf.3	-	22	4490	c.4238_splice	c.e22-1	p.G1413_splice		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A							integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TAACAGTCACCTGTAAAACAC	0.443										HNSCC(18;0.044)			6	76					0.00116845	0.00120956	0.001168	1	0	
OSBPL3	26031	broad.mit.edu	37	7	24874117	24874117	+	Silent	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:24874117G>T	uc003sxf.2	-	15	2139	c.1734C>A	c.(1732-1734)CCC>CCA	p.P578P	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Silent_p.P542P|OSBPL3_uc003sxh.2_Silent_p.P547P|OSBPL3_uc003sxi.2_Silent_p.P511P|OSBPL3_uc003sxj.1_Silent_p.P307P|OSBPL3_uc003sxk.1_Silent_p.P276P	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	578					lipid transport		lipid binding|protein binding			skin(1)	1						TCCTTTCCAGGGGGCTGGGAA	0.647													9	68					7.48243e-07	8.09386e-07	0.006214	1	0	
CCDC129	223075	broad.mit.edu	37	7	31690787	31690787	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:31690787C>T	uc003tcj.1	+	12	3608	c.2615C>T	c.(2614-2616)ACG>ATG	p.T872M	CCDC129_uc011kad.1_Missense_Mutation_p.T882M|CCDC129_uc003tci.1_Missense_Mutation_p.T723M|CCDC129_uc011kae.1_Missense_Mutation_p.T898M|CCDC129_uc003tck.1_Missense_Mutation_p.T780M	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	872											0						GCCATGAAGACGATATGCCAA	0.468													12	70					0	0	0.003163	0	0	
AEBP1	165	broad.mit.edu	37	7	44153500	44153500	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:44153500C>T	uc003tkb.2	+	21	3422	c.3117C>T	c.(3115-3117)AAC>AAT	p.N1039N	AEBP1_uc003tkc.3_Silent_p.N614N|AEBP1_uc003tkd.2_Silent_p.N289N	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	1039	Required for transcriptional repression (By similarity).|Interaction with MAPK1 and MAPK3 (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GGCGCCTCAACGCCACCACCA	0.697													7	27					0	0	0.001984	0	0	
ADCY1	107	broad.mit.edu	37	7	45632428	45632428	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:45632428G>A	uc003tne.3	+	2	728	c.710G>A	c.(709-711)CGT>CAT	p.R237H	ADCY1_uc003tnd.2_Missense_Mutation_p.R12H	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	237	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CTGACTGAGCGTTCACAGAGG	0.577													12	80					0	0	0.001855	0	0	
ADCY1	107	broad.mit.edu	37	7	45742987	45742987	+	Nonsense_Mutation	SNP	C	T	T	rs61738404		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:45742987C>T	uc003tne.3	+	15	2485	c.2467C>T	c.(2467-2469)CGA>TGA	p.R823*		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	823	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	AGAGGAGGAGCGAGAGGACAT	0.567													17	52					0	0	0.004990	0	0	
PKD1L1	168507	broad.mit.edu	37	7	47851593	47851593	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:47851593C>T	uc003tny.1	-	50	7403	c.7403G>A	c.(7402-7404)AGC>AAC	p.S2468N	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron|PKD1L1_uc003tob.2_Missense_Mutation_p.S195N	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2468	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AGCCCTGGTGCTGCGGTCAAT	0.587													7	7					0	0	0.001984	0	0	
FKBP9L	360132	broad.mit.edu	37	7	55752957	55752957	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:55752957C>T	uc010kzl.2	-	5	593	c.493G>A	c.(493-495)GAG>AAG	p.E165K	FKBP9L_uc010kzk.2_Missense_Mutation_p.E54K|FKBP9L_uc003tqt.2_Missense_Mutation_p.E54K|FKBP9L_uc011kcs.1_Missense_Mutation_p.E54K	NR_003949				SubName: Full=cDNA, FLJ79189, highly similar to FK506-binding protein 9 (EC 5.2.1.8);												0						ATGTACCCCTCGGGAAGGCCA	0.532													4	30					0	0	0.009096	0	0	
ZNF713	349075	broad.mit.edu	37	7	56007543	56007543	+	Silent	SNP	T	C	C	rs113149662		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:56007543T>C	uc003trc.1	+	4	1175	c.1137T>C	c.(1135-1137)CAT>CAC	p.H379H	ZNF713_uc003tra.1_Silent_p.H392H|MRPS17_uc003trb.2_Intron	NM_182633	NP_872439	Q8N859	ZN713_HUMAN	zinc finger protein 713	379	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			AAAGAACTCATACAGGAGAGA	0.413													18	48					0	0	0.006122	0	0	
TYW1B	441250	broad.mit.edu	37	7	72281204	72281204	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:72281204G>A	uc011kej.1	-	4	444	c.285C>T	c.(283-285)GAC>GAT	p.D95D	TYW1B_uc011keh.1_Intron|TYW1B_uc011kek.1_Intron	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	95	Flavodoxin-like.				tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						TTGGTAGGCCGTCAGTGTATG	0.413													15	77					0	0	0.002450	0	0	
ABHD11	83451	broad.mit.edu	37	7	73153053	73153053	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:73153053G>A	uc003tzb.2	-	1	132	c.75C>T	c.(73-75)GGC>GGT	p.G25G	RFC2_uc011kfa.1_Intron|ABHD11_uc011kfb.1_Silent_p.G25G|ABHD11_uc003tzc.2_Silent_p.G25G|ABHD11_uc003tza.2_5'UTR|ABHD11_uc003tzf.2_Silent_p.G25G|ABHD11_uc011kfc.1_Silent_p.G25G	NM_148912	NP_683710	Q8NFV4	ABHDB_HUMAN	abhydrolase domain containing 11 isoform 1	25							hydrolase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				GGCCGTGGGGGCCGAGTCCCT	0.692													4	8					0	0	0.009096	0	0	
WBSCR28	135886	broad.mit.edu	37	7	73280112	73280112	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:73280112T>C	uc003tzk.2	+	3	743	c.707T>C	c.(706-708)GTC>GCC	p.V236A	RFC2_uc011kfa.1_Intron|WBSCR28_uc003tzl.2_Missense_Mutation_p.V135A	NM_182504	NP_872310	Q6UE05	WBS28_HUMAN	hypothetical protein LOC135886	236						integral to membrane				breast(1)	1		Lung NSC(55;0.159)				CCCCAGGAGGTCTCAGGGTCT	0.592													45	136					0	0	0.013114	0	0	
ZNF804B	219578	broad.mit.edu	37	7	88963218	88963218	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:88963218G>A	uc011khi.1	+	4	1460	c.922G>A	c.(922-924)GAC>AAC	p.D308N		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	308						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AGACAAACACGACTCTATTGA	0.358										HNSCC(36;0.09)			5	29					0	0	0.000602	0	0	
SAMD9	54809	broad.mit.edu	37	7	92733171	92733171	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:92733171G>A	uc003umf.2	-	3	2496	c.2240C>T	c.(2239-2241)GCT>GTT	p.A747V	SAMD9_uc003umg.2_Missense_Mutation_p.A747V	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	747						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			AATGTGCATAGCCAAGGTAGT	0.393													42	173					0	0	0.010771	0	0	
COL1A2	1278	broad.mit.edu	37	7	94041414	94041414	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:94041414C>T	uc003ung.1	+	24	1856	c.1385C>T	c.(1384-1386)GCT>GTT	p.A462V	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	462			Missing (in OI2A).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	ATCGGCCCCGCTGGAAAAGAA	0.368										HNSCC(75;0.22)			7	23					0	0	0.003080	0	0	
DYNC1I1	1780	broad.mit.edu	37	7	95499216	95499216	+	Silent	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:95499216C>A	uc003uoc.3	+	6	724	c.447C>A	c.(445-447)GGC>GGA	p.G149G	DYNC1I1_uc003uod.3_Silent_p.G132G|DYNC1I1_uc003uob.2_Silent_p.G112G|DYNC1I1_uc003uoe.3_Silent_p.G129G|DYNC1I1_uc010lfl.2_Silent_p.G138G	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	149					vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			ATAAACTGGGCGTGTCAAAGG	0.453													12	81					0.00400662	0.00411943	0.004007	1	0	
TRRAP	8295	broad.mit.edu	37	7	98540640	98540640	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:98540640C>T	uc003upp.2	+	31	4682	c.4473C>T	c.(4471-4473)AAC>AAT	p.N1491N	TRRAP_uc011kis.1_Silent_p.N1491N|TRRAP_uc003upr.2_Silent_p.N1183N	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1491					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GCGACGGAAACGTGAGTGACT	0.522													4	26					0	0	0.009096	0	0	
TRRAP	8295	broad.mit.edu	37	7	98574288	98574288	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:98574288G>A	uc003upp.2	+	54	8330	c.8121G>A	c.(8119-8121)ACG>ACA	p.T2707T	TRRAP_uc011kis.1_Silent_p.T2689T|TRRAP_uc003upr.2_Silent_p.T2406T	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2707	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCCGGTCCACGCTGATGTTGG	0.562													10	55					0	0	0.008291	0	0	
SMURF1	57154	broad.mit.edu	37	7	98649848	98649848	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:98649848G>A	uc003upu.1	-	7	1021	c.701C>T	c.(700-702)CCG>CTG	p.P234L	SMURF1_uc003upv.1_Missense_Mutation_p.P234L|SMURF1_uc003upt.2_Missense_Mutation_p.P234L	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	234	WW 1.				BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			GGGCAGTTCCGGGGACTGGTG	0.502													12	82					0	0	0.010729	0	0	
MUC17	140453	broad.mit.edu	37	7	100676090	100676090	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:100676090G>A	uc003uxp.1	+	3	1446	c.1393G>A	c.(1393-1395)GCC>ACC	p.A465T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	465	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|5.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CACTCCAGTGGCCAGTTCTGA	0.488													79	334					0	0	0.014410	0	0	
CUX1	1523	broad.mit.edu	37	7	101840004	101840004	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:101840004C>T	uc003uyx.3	+	15	1351	c.1313C>T	c.(1312-1314)CCG>CTG	p.P438L	CUX1_uc003uys.3_Missense_Mutation_p.P449L|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	438					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						CCCCGCAACCCGGGGGAGCAG	0.592													14	73					0	0	0.002450	0	0	
RELN	5649	broad.mit.edu	37	7	103179672	103179672	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:103179672G>A	uc003vca.2	-	45	7193	c.7033C>T	c.(7033-7035)CCC>TCC	p.P2345S	RELN_uc010liz.2_Missense_Mutation_p.P2345S	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2345					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCACACACGGGCATCTTGGTG	0.493													5	36					0	0	0.000602	0	0	
PUS7	54517	broad.mit.edu	37	7	105135657	105135657	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:105135657G>T	uc003vcx.2	-	6	993	c.774C>A	c.(772-774)TGC>TGA	p.C258*	PUS7_uc010lji.2_Nonsense_Mutation_p.C264*|PUS7_uc003vcy.2_Nonsense_Mutation_p.C258*|PUS7_uc003vcz.1_Nonsense_Mutation_p.C258*	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	258					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						GTACGAAGTGGCAGTAACTTC	0.318													25	139					1.33986e-20	1.51432e-20	0.004656	1	0	
ST7	7982	broad.mit.edu	37	7	116869938	116869938	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:116869938A>C	uc011knn.1	+	14	1470	c.1465A>C	c.(1465-1467)ACC>CCC	p.T489P	ST7_uc003vio.2_3'UTR|ST7_uc003viq.2_3'UTR|ST7_uc011knm.1_3'UTR|ST7_uc003vir.2_3'UTR	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	Error:Variant_position_missing_in_Q9NRC1_after_alignment						integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		CACTCACCTCACCCGCCGCTG	0.507													10	25					0	0	0.004289	0	0	
CTTNBP2	83992	broad.mit.edu	37	7	117432324	117432324	+	Missense_Mutation	SNP	G	T	T	rs151077142		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:117432324G>T	uc003vjf.2	-	4	1018	c.926C>A	c.(925-927)ACA>AAA	p.T309K		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	309										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		CACTAGGTCTGTCTGGCATGC	0.453													28	129					1.77063e-15	1.99267e-15	0.005443	1	0	
AASS	10157	broad.mit.edu	37	7	121755182	121755182	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:121755182G>A	uc003vka.2	-	8	1085	c.989C>T	c.(988-990)GCT>GTT	p.A330V	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.A330V|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	330	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	CTTGCCCGGAGCCAGGAGACT	0.488													14	44					0	0	0.001855	0	0	
Unknown	0	broad.mit.edu	37	7	124116920	124116920	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:124116920G>A	uc011kod.1	+	1	496	c.496G>A	c.(496-498)GAC>AAC	p.D166N		NM_001085395	NP_001078864			RecName: Full=Putative RNA polymerase II subunit A C-terminal domain phosphatase SSU72-like protein 2;          Short=CTD phosphatase SSU72-like protein 2;          EC=3.1.3.16;																		GCAGCAGTCCGACGACATGGA	0.522													4	28					0	0	0.009096	0	0	
ZNF800	168850	broad.mit.edu	37	7	127014561	127014561	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:127014561G>A	uc003vlx.1	-	5	1092	c.829C>T	c.(829-831)CGC>TGC	p.R277C	ZNF800_uc003vlw.1_Missense_Mutation_p.R180C|ZNF800_uc003vly.1_Missense_Mutation_p.R277C|ZNF800_uc010lla.2_Missense_Mutation_p.R277C	NM_176814	NP_789784	Q2TB10	ZN800_HUMAN	zinc finger protein 800	277					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTCTTACTGCGTCCTTTAGAG	0.368													16	70					0	0	0.004007	0	0	
FAM40B	57464	broad.mit.edu	37	7	129096467	129096467	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:129096467G>A	uc011koy.1	+	9	1062	c.1022G>A	c.(1021-1023)CGC>CAC	p.R341H	FAM40B_uc003vow.2_Missense_Mutation_p.R341H|FAM40B_uc011koz.1_5'Flank	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	341											0						CTGCGAGGCCGCCGTGGCTCT	0.562													5	35					0	0	0.000602	0	0	
AKR1B15	441282	broad.mit.edu	37	7	134254170	134254170	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:134254170G>A	uc011kpr.1	+	5	623	c.324G>A	c.(322-324)TGG>TGA	p.W108*	AKR1B15_uc003vrt.2_Nonsense_Mutation_p.W80*|AKR1B15_uc011kps.1_Nonsense_Mutation_p.W80*	NM_001080538	NP_001074007	C9JRZ8	AK1BF_HUMAN	aldo-keto reductase family 1, member B15	108							oxidoreductase activity			ovary(1)	1						TGCAGGTGTGGCCCACTTTCT	0.463													8	61					0	0	0.003080	0	0	
KIAA1549	57670	broad.mit.edu	37	7	138566238	138566238	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:138566238C>T	uc011kql.1	-	11	4174	c.4125G>A	c.(4123-4125)GCG>GCA	p.A1375A	KIAA1549_uc011kqi.1_Silent_p.A159A|KIAA1549_uc003vuk.3_Silent_p.A1325A|KIAA1549_uc011kqj.1_Silent_p.A1375A|KIAA1549_uc011kqk.1_Silent_p.A159A	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1375						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						CTGGCAGTGGCGCTGGCTCAT	0.507			O	BRAF	pilocytic astrocytoma								8	46					0	0	0.004482	0	0	
KIAA1549	57670	broad.mit.edu	37	7	138603140	138603140	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:138603140G>A	uc011kql.1	-	2	1281	c.1232C>T	c.(1231-1233)CCG>CTG	p.P411L	KIAA1549_uc003vuk.3_Missense_Mutation_p.P361L|KIAA1549_uc011kqj.1_Missense_Mutation_p.P411L	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	411						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TGAGGACACCGGGCTCAGGAT	0.542			O	BRAF	pilocytic astrocytoma								15	60					0	0	0.003163	0	0	
RAB19	401409	broad.mit.edu	37	7	140107546	140107546	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:140107546G>T	uc010lni.2	+	2	298	c.100G>T	c.(100-102)GTG>TTG	p.V34L	RAB19_uc011krc.1_Missense_Mutation_p.V34L	NM_001008749	NP_001008749	A4D1S5	RAB19_HUMAN	RAB19, member RAS oncogene family	34					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0	Melanoma(164;0.0142)					GACGTGTGTGGTGCAGCATTT	0.473													14	38					4.3838e-07	4.76637e-07	0.001855	1	0	
EPHA1	2041	broad.mit.edu	37	7	143092451	143092451	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:143092451G>T	uc003wcz.2	-	12	2131	c.2044C>A	c.(2044-2046)CAC>AAC	p.H682N		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	682	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				ATATGCGGGTGGCTAAACTGG	0.547											OREG0018405	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	287					2.32078e-09	2.56279e-09	0.003163	1	0	
SLC4A2	6522	broad.mit.edu	37	7	150759083	150759083	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:150759083C>T	uc003wit.3	+	2	265	c.9C>T	c.(7-9)AGC>AGT	p.S3S	SLC4A2_uc011kve.1_5'Flank|SLC4A2_uc003wiu.3_5'Flank	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	3	Cytoplasmic (Potential).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCATGAGCAGCGCCCCTCGGC	0.652													3	15					0	0	0.009096	0	0	
CRYGN	155051	broad.mit.edu	37	7	151135100	151135100	+	Silent	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:151135100G>T	uc003wke.2	-	2	348	c.252C>A	c.(250-252)TCC>TCA	p.S84S	CRYGN_uc003wkf.2_Silent_p.S84S|CRYGN_uc003wkg.2_RNA|CRYGN_uc010lqd.1_5'Flank	NM_144727	NP_653328	Q8WXF5	CRGN_HUMAN	gammaN-crystallin	84	Beta/gamma crystallin 'Greek key' 2.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00358)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CAGGCCGACAGGAGCCCATGT	0.622													6	28					0.00116845	0.00120956	0.001168	1	0	
NOM1	64434	broad.mit.edu	37	7	156762322	156762322	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr7:156762322C>T	uc003wmy.2	+	11	2523	c.2508C>T	c.(2506-2508)GAC>GAT	p.D836D		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	836					RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		GAAGCGCCGACGAAGCCAACG	0.527													11	94					0	0	0.013537	0	0	
MYOM2	9172	broad.mit.edu	37	8	2064029	2064029	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:2064029A>C	uc003wpx.3	+	27	3483	c.3345A>C	c.(3343-3345)GAA>GAC	p.E1115D	MYOM2_uc011kwi.1_Missense_Mutation_p.E540D	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1115					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CTGTGCTGGAAGAGGCTGAGT	0.378													5	20					0	0	0.000602	0	0	
CSMD1	64478	broad.mit.edu	37	8	3253820	3253820	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:3253820C>T	uc011kwk.1	-	17	2882	c.2492G>A	c.(2491-2493)GGC>GAC	p.G831D	CSMD1_uc011kwj.1_Missense_Mutation_p.G223D|CSMD1_uc003wqe.2_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	831	Extracellular (Potential).|CUB 5.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TGCCTGGGTGCCGTGGTACTC	0.537													3	8					0	0	0.009096	0	0	
MCPH1	79648	broad.mit.edu	37	8	6266828	6266828	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:6266828A>G	uc003wqi.2	+	2	119	c.51A>G	c.(49-51)TCA>TCG	p.S17S	MCPH1_uc003wqh.2_Silent_p.S17S|MCPH1_uc011kwl.1_Silent_p.S17S|uc003wqf.2_5'Flank	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	17	BRCT 1.					microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		AAGTGTGGTCATCCAATGGAA	0.368													4	40					0	0	0.001168	0	0	
SGK223	157285	broad.mit.edu	37	8	8234263	8234263	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:8234263T>C	uc003wsh.3	-	2	1656	c.1656A>G	c.(1654-1656)GTA>GTG	p.V552V		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	552							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						CCGGGGACCCTACAGGGCTAC	0.652													11	37					0	0	0.010729	0	0	
SGK223	157285	broad.mit.edu	37	8	8234544	8234544	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:8234544G>A	uc003wsh.3	-	2	1375	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	459							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GGGCTGTCCCGGCCCCAGCCA	0.622													5	22					0	0	0.000602	0	0	
FAM167A	83648	broad.mit.edu	37	8	11282093	11282093	+	Missense_Mutation	SNP	C	T	T	rs145481836	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:11282093C>T	uc010lry.1	-	3	1054	c.434G>A	c.(433-435)CGT>CAT	p.R145H	C8orf12_uc003wtu.2_Intron|C8orf12_uc003wtv.2_Intron|FAM167A_uc003wtw.2_Missense_Mutation_p.R145H	NM_053279	NP_444509	Q96KS9	F167A_HUMAN	hypothetical protein LOC83648	145	Potential.										0						GATGTCGCCACGCAGGCGCAT	0.627													7	35					0	0	0.003080	0	0	
DLC1	10395	broad.mit.edu	37	8	12957132	12957132	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:12957132T>G	uc003wwm.2	-	9	3158	c.2714A>C	c.(2713-2715)GAG>GCG	p.E905A	DLC1_uc003wwk.1_Missense_Mutation_p.E468A|DLC1_uc003wwl.1_Missense_Mutation_p.E502A|DLC1_uc011kxx.1_Missense_Mutation_p.E394A	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	905					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						GTCGTCCAGCTCGGGGAAGAT	0.577													8	25					0	0	0.003080	0	0	
BMP1	649	broad.mit.edu	37	8	22053003	22053003	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:22053003C>T	uc003xbg.2	+	13	1912	c.1668C>T	c.(1666-1668)CGC>CGT	p.R556R	BMP1_uc003xba.2_Silent_p.R556R|BMP1_uc003xbb.2_Silent_p.R556R|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Silent_p.R305R|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Silent_p.R305R|BMP1_uc011kzc.1_Silent_p.R305R|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	556	EGF-like 1; calcium-binding (Potential).				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		GGCCCAACCGCGGGGGCTGTG	0.637													8	58					0	0	0.006214	0	0	
TNFRSF10D	8793	broad.mit.edu	37	8	23002133	23002133	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:23002133G>A	uc003xcz.1	-	7	876	c.784C>T	c.(784-786)CGT>TGT	p.R262C		NM_003840	NP_003831	Q9UBN6	TR10D_HUMAN	tumor necrosis factor receptor superfamily,	262	Cytoplasmic (Potential).				anti-apoptosis|apoptosis	integral to membrane	TRAIL binding|transmembrane receptor activity				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0147)|COAD - Colon adenocarcinoma(73;0.0612)		GGACATGAACGCCGCCGGAAA	0.592													5	29					0	0	0.000602	0	0	
LOXL2	4017	broad.mit.edu	37	8	23198632	23198632	+	Missense_Mutation	SNP	C	T	T	rs140591037		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:23198632C>T	uc003xdh.1	-	4	955	c.616G>A	c.(616-618)GTG>ATG	p.V206M	uc003xdj.2_RNA|uc003xdi.2_RNA	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	206	SRCR 2.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		TTCACCTCCACGTAGCCCTCC	0.577													13	85					0	0	0.001855	0	0	
PPP2R2A	5520	broad.mit.edu	37	8	26221281	26221281	+	Missense_Mutation	SNP	G	A	A	rs146354435		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:26221281G>A	uc003xeu.2	+	8	1149	c.847G>A	c.(847-849)GAA>AAA	p.E283K	PPP2R2A_uc003xek.2_Missense_Mutation_p.E284K|PPP2R2A_uc011laf.1_Missense_Mutation_p.E293K	NM_002717	NP_002708	P63151	2ABA_HUMAN	alpha isoform of regulatory subunit B55, protein	283	WD 5.				protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)		ATTTTTTTCCGAAATCATCTC	0.333													7	36					0	0	0.001984	0	0	
CHRNA2	1135	broad.mit.edu	37	8	27321182	27321182	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:27321182C>T	uc010lur.2	-	6	1387	c.778G>A	c.(778-780)GTC>ATC	p.V260I	CHRNA2_uc011lal.1_Missense_Mutation_p.V245I|CHRNA2_uc010lus.2_Missense_Mutation_p.V62I	NM_000742	NP_000733	Q15822	ACHA2_HUMAN	cholinergic receptor, nicotinic, alpha	260	Extracellular.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)	1		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0208)|Epithelial(17;2.77e-10)|Colorectal(74;0.136)	Atracurium(DB00732)|Biperiden(DB00810)|Carbachol(DB00411)|Cisatracurium Besylate(DB00565)|Decamethonium(DB01245)|Dextromethorphan(DB00514)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Gallamine Triethiodide(DB00483)|Levallorphan(DB00504)|Mecamylamine(DB00657)|Metocurine(DB01336)|Metocurine Iodide(DB00416)|Mivacurium(DB01226)|Nicotine(DB00184)|Pancuronium(DB01337)|Pipecuronium(DB01338)|Rocuronium(DB00728)|Tubocurarine(DB01199)	CGCCGGATGACGAAGGCGTAG	0.612													10	37					0	0	0.008291	0	0	
KIF13B	23303	broad.mit.edu	37	8	28974486	28974486	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:28974486G>A	uc003xhh.3	-	31	3758	c.3699C>T	c.(3697-3699)GGC>GGT	p.G1233G	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1233					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		GCTGAGGGCAGCCATGCACCG	0.577													17	48					0	0	0.008871	0	0	
KIF13B	23303	broad.mit.edu	37	8	29035015	29035015	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:29035015C>T	uc003xhh.3	-	9	860	c.801G>A	c.(799-801)GGG>GGA	p.G267G	KIF13B_uc003xhj.2_Silent_p.G164G|KIF13B_uc010lvf.1_Silent_p.G203G	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	267	Kinesin-motor.				microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		TCAGCCTGTCCCCTGCAGCGC	0.438											OREG0018684	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	82					0	0	0.001855	0	0	
BRF2	55290	broad.mit.edu	37	8	37704629	37704629	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:37704629C>T	uc003xkk.2	-	3	389	c.279G>A	c.(277-279)GCG>GCA	p.A93A		NM_018310	NP_060780	Q9HAW0	BRF2_HUMAN	RNA polymerase III transcription initiation	93	1.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter|transcription initiation, DNA-dependent	nucleoplasm	protein binding|zinc ion binding				0		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			AGTAGGCAACCGCGGTATCCT	0.552													19	93					0	0	0.007413	0	0	
SLC20A2	6575	broad.mit.edu	37	8	42323320	42323320	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:42323320C>T	uc010lxl.2	-	3	1099	c.405G>A	c.(403-405)GTG>GTA	p.V135V	SLC20A2_uc010lxm.2_Silent_p.V135V|SLC20A2_uc003xpe.2_Silent_p.V135V	NM_006749	NP_006740	Q08357	S20A2_HUMAN	solute carrier family 20, member 2	135	Extracellular (Potential).				interspecies interaction between organisms	integral to plasma membrane|membrane fraction	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			ovary(2)	2	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			CCATCCACTGCACACCTTTGG	0.408													15	68					0	0	0.006122	0	0	
PXDNL	137902	broad.mit.edu	37	8	52284448	52284448	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:52284448G>T	uc003xqu.3	-	19	3987	c.3886C>A	c.(3886-3888)CAA>AAA	p.Q1296K	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1296					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CAGCAGTCTTGCCACACTCGC	0.468													4	19					1.23904e-05	1.32406e-05	0.000602	1	0	
ATP6V1H	51606	broad.mit.edu	37	8	54742014	54742014	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:54742014T>A	uc003xrl.2	-	4	448	c.296A>T	c.(295-297)GAT>GTT	p.D99V	ATP6V1H_uc003xrk.2_Missense_Mutation_p.D59V|ATP6V1H_uc003xrm.2_Missense_Mutation_p.D99V|ATP6V1H_uc003xrn.2_Missense_Mutation_p.D99V|ATP6V1H_uc011ldv.1_Missense_Mutation_p.D19V|ATP6V1H_uc010lyd.2_Missense_Mutation_p.D35V	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	99					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			CTGCAGCATATCATCCACCAT	0.318													11	54					0	0	0.010729	0	0	
RP1	6101	broad.mit.edu	37	8	55537789	55537789	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:55537789C>T	uc003xsd.1	+	4	1495	c.1347C>T	c.(1345-1347)CCC>CCT	p.P449P	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	449					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTTATAGGCCCCCTACACCTG	0.438													15	64					0	0	0.002450	0	0	
MOS	4342	broad.mit.edu	37	8	57025637	57025637	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:57025637G>A	uc011leb.1	-	1	905	c.905C>T	c.(904-906)GCC>GTC	p.A302V		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	302	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			CTCGAAGACGGCAGCGGAGAG	0.687													8	37					0	0	0.004482	0	0	
VCPIP1	80124	broad.mit.edu	37	8	67577678	67577678	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:67577678T>C	uc003xwn.2	-	1	1775	c.1516A>G	c.(1516-1518)AAA>GAA	p.K506E	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	506					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			CTGTAATTTTTGTCAGTCCTC	0.423													33	160					0	0	0.009535	0	0	
SLCO5A1	81796	broad.mit.edu	37	8	70617426	70617426	+	Missense_Mutation	SNP	G	T	T	rs138620020		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:70617426G>T	uc003xyl.2	-	6	2169	c.1462C>A	c.(1462-1464)CTC>ATC	p.L488I	SLCO5A1_uc010lzb.2_Missense_Mutation_p.L433I|SLCO5A1_uc011lfa.1_Intron|SLCO5A1_uc003xyk.2_Missense_Mutation_p.L488I|SLCO5A1_uc010lzc.2_Missense_Mutation_p.L433I	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	488	Helical; Name=8; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TAGCCTCCGAGGACAATACCA	0.398													10	60					3.86212e-05	4.0859e-05	0.008291	1	0	
GDAP1	54332	broad.mit.edu	37	8	75276270	75276270	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:75276270G>A	uc003yah.2	+	6	824	c.745G>A	c.(745-747)GTC>ATC	p.V249I	GDAP1_uc011lfj.1_Missense_Mutation_p.V134I|GDAP1_uc003yai.2_Missense_Mutation_p.V181I	NM_018972	NP_061845	Q8TB36	GDAP1_HUMAN	ganglioside-induced differentiation-associated	249	GST C-terminal.					cytoplasm					0	Breast(64;0.00769)	Myeloproliferative disorder(644;0.0122)	BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.104)|all cancers(69;0.234)			CCTGGCAGACGTCTCACTCGC	0.502													7	35					0	0	0.001984	0	0	
RBM12B	389677	broad.mit.edu	37	8	94746562	94746562	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:94746562G>A	uc003yfz.2	-	3	2270	c.2077C>T	c.(2077-2079)CGA>TGA	p.R693*		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	693							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			TCGGGTGGTCGCCTCCATTCT	0.627													27	144					0	0	0.007291	0	0	
INTS8	55656	broad.mit.edu	37	8	95837172	95837172	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:95837172C>A	uc003yhb.2	+	2	308	c.182C>A	c.(181-183)CCT>CAT	p.P61H	INTS8_uc003yha.1_Missense_Mutation_p.P61H|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	61					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					GCTTCCAAACCTTCAGTTAAT	0.328													5	46					3.59834e-05	3.81827e-05	0.001168	1	0	
KCNS2	3788	broad.mit.edu	37	8	99440481	99440481	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:99440481G>A	uc003yin.2	+	2	624	c.274G>A	c.(274-276)GTC>ATC	p.V92I		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	92	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			CAAGCTTCACGTCATGGCTGA	0.547													12	56					0	0	0.001855	0	0	
RRM2B	50484	broad.mit.edu	37	8	103220371	103220371	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:103220371G>A	uc003ykn.2	-	9	1290	c.1046C>T	c.(1045-1047)GCA>GTA	p.A349V	RRM2B_uc003yko.2_RNA|RRM2B_uc010mbv.1_Missense_Mutation_p.A297V|RRM2B_uc010mbw.1_Missense_Mutation_p.A137V|RRM2B_uc010mbx.1_RNA|RRM2B_uc010mby.1_RNA	NM_015713	NP_056528	Q7LG56	RIR2B_HUMAN	ribonucleotide reductase M2 B (TP53 inducible)	349					deoxyribonucleoside diphosphate metabolic process|DNA repair|nucleobase, nucleoside and nucleotide interconversion	nucleoplasm	ribonucleoside-diphosphate reductase activity|transition metal ion binding			ovary(2)	2	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000728)			TTAAAAATCTGCATCCAAGGT	0.308								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					17	40					0	0	0.006122	0	0	
UBR5	51366	broad.mit.edu	37	8	103289205	103289205	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:103289205A>G	uc003ykr.1	-	45	6537	c.6504T>C	c.(6502-6504)TCT>TCC	p.S2168S	UBR5_uc003yks.1_Silent_p.S2168S	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	2168					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AATACCTGAAAGATGTGAGAG	0.378													8	51					0	0	0.003080	0	0	
AZIN1	51582	broad.mit.edu	37	8	103855874	103855874	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:103855874C>A	uc003ykx.2	-	4	749	c.7G>T	c.(7-9)GGA>TGA	p.G3*	AZIN1_uc003yky.2_Nonsense_Mutation_p.G3*	NM_015878	NP_056962	O14977	AZIN1_HUMAN	ornithine decarboxylase antizyme inhibitor	3					polyamine biosynthetic process|regulation of cellular amino acid metabolic process	cytosol	catalytic activity|protein binding				0	Lung NSC(17;0.000143)|all_lung(17;0.000294)		OV - Ovarian serous cystadenocarcinoma(57;0.000196)|STAD - Stomach adenocarcinoma(118;0.0414)			TCAATAAATCCTTTCATCTCA	0.418													5	54					5.9392e-07	6.44428e-07	0.001168	1	0	
LRP12	29967	broad.mit.edu	37	8	105503269	105503269	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:105503269G>A	uc003yma.2	-	7	2307	c.2212C>T	c.(2212-2214)CGC>TGC	p.R738C	LRP12_uc003ymb.2_Missense_Mutation_p.R719C|LRP12_uc003ylz.2_Missense_Mutation_p.R144C	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	738	Cytoplasmic (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CGTACCCAGCGTAGCCCCTGA	0.478													14	55					0	0	0.003163	0	0	
EFR3A	23167	broad.mit.edu	37	8	133015532	133015532	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:133015532G>A	uc003yte.2	+	22	2561	c.2360G>A	c.(2359-2361)CGT>CAT	p.R787H		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	787						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			CTCACCATACGGTAAGGGTTT	0.328													10	53					0	0	0.008291	0	0	
KCNK9	51305	broad.mit.edu	37	8	140631097	140631097	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:140631097C>T	uc003yvf.1	-	2	593	c.529G>A	c.(529-531)GCC>ACC	p.A177T	KCNK9_uc003yvg.1_Missense_Mutation_p.A177T|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	177	Helical; (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			TGGGAGAAGGCGGCCGCCCCG	0.572													9	41					0	0	0.004482	0	0	
EPPK1	83481	broad.mit.edu	37	8	144945087	144945087	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:144945087G>T	uc003zaa.1	-	1	2348	c.2335C>A	c.(2335-2337)CTG>ATG	p.L779M		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	779	Plectin 15.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			AGAAGCTGCAGGTACGTGAGG	0.617													11	59					0.000978159	0.00101656	0.010729	1	0	
PLEC	5339	broad.mit.edu	37	8	144999695	144999695	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:144999695G>A	uc003zaf.1	-	31	4983	c.4813C>T	c.(4813-4815)CGT>TGT	p.R1605C	PLEC_uc003zab.1_Missense_Mutation_p.R1468C|PLEC_uc003zac.1_Missense_Mutation_p.R1472C|PLEC_uc003zad.2_Missense_Mutation_p.R1468C|PLEC_uc003zae.1_Missense_Mutation_p.R1436C|PLEC_uc003zag.1_Missense_Mutation_p.R1446C|PLEC_uc003zah.2_Missense_Mutation_p.R1454C|PLEC_uc003zaj.2_Missense_Mutation_p.R1495C	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1605	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GCCCCGCCACGCTGGCGCTCG	0.731													3	14					0	0	0.004672	0	0	
SLC39A4	55630	broad.mit.edu	37	8	145638296	145638296	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr8:145638296G>A	uc003zcq.2	-	11	1762	c.1662C>T	c.(1660-1662)TCC>TCT	p.S554S	SLC39A4_uc003zcm.1_Silent_p.S56S|SLC39A4_uc003zcn.2_Silent_p.S56S|SLC39A4_uc003zco.2_Silent_p.S278S|SLC39A4_uc003zcp.2_Silent_p.S529S	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	554	Cytoplasmic (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			CTTGGCGCACGGACAGCCCCG	0.672													4	17					0	0	0.009096	0	0	
KIAA0020	9933	broad.mit.edu	37	9	2829847	2829847	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:2829847T>C	uc003zhp.1	-	8	875	c.779A>G	c.(778-780)AAT>AGT	p.N260S	KIAA0020_uc010mhc.1_Missense_Mutation_p.N259S|KIAA0020_uc003zhq.1_Missense_Mutation_p.N259S	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	260	Pumilio 3.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		GGCTTTGTCATTGTATGCGTA	0.458													35	172					0	0	0.003755	0	0	
RFX3	5991	broad.mit.edu	37	9	3225156	3225156	+	Silent	SNP	G	A	A	rs113424988		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:3225156G>A	uc003zhr.2	-	18	2448	c.2136C>T	c.(2134-2136)CTC>CTT	p.L712L	RFX3_uc010mhd.2_Silent_p.L712L	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	712					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		CGCCAGTCTCGAGAACAGGCT	0.498													7	34					0	0	0.001984	0	0	
GLIS3	169792	broad.mit.edu	37	9	4118080	4118080	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:4118080C>T	uc003zhw.1	-	3	1127	c.933G>A	c.(931-933)GCG>GCA	p.A311A	GLIS3_uc003zhx.1_Silent_p.A466A|GLIS3_uc003zic.1_Silent_p.A466A|GLIS3_uc003zie.1_Silent_p.A466A|GLIS3_uc010mhh.1_Silent_p.A341A|GLIS3_uc003zid.1_Silent_p.A244A|GLIS3_uc010mhi.1_Silent_p.A273A|GLIS3_uc003zif.1_Silent_p.A244A|GLIS3_uc003zig.1_Silent_p.A310A|GLIS3_uc003zih.1_Silent_p.A244A|GLIS3_uc003zhy.1_Silent_p.A244A|GLIS3_uc003zhz.1_Silent_p.A244A|GLIS3_uc003zib.1_Silent_p.A310A|GLIS3_uc010mhg.1_Silent_p.A244A	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	311					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		GGTGAAGGTGCGCATGGGCAT	0.507													9	32					0	0	0.006214	0	0	
JAK2	3717	broad.mit.edu	37	9	5072572	5072572	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:5072572T>C	uc010mhm.2	+	12	1835	c.1722T>C	c.(1720-1722)CAT>CAC	p.H574H	JAK2_uc003ziw.2_Silent_p.H574H	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	574	Protein kinase 1.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		GTCAACTGCATGAAACAGAAG	0.353		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				13	38					0	0	0.013537	0	0	
MPDZ	8777	broad.mit.edu	37	9	13150616	13150616	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:13150616C>T	uc010mia.1	-	24	3581	c.3524G>A	c.(3523-3525)CGG>CAG	p.R1175Q	MPDZ_uc010mhx.2_Missense_Mutation_p.R67Q|MPDZ_uc011lmm.1_Missense_Mutation_p.R67Q|MPDZ_uc003zkz.3_Intron|MPDZ_uc010mhy.2_Missense_Mutation_p.R1175Q|MPDZ_uc010mhz.2_Missense_Mutation_p.R1175Q|MPDZ_uc011lmn.1_Missense_Mutation_p.R1175Q|MPDZ_uc003zlb.3_Missense_Mutation_p.R1175Q	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1175	PDZ 7.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		ATTGCTTAGCCGACTCCCCAT	0.418													16	70					0	0	0.003163	0	0	
FREM1	158326	broad.mit.edu	37	9	14813042	14813042	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:14813042C>T	uc003zlm.2	-	16	3251	c.2661G>A	c.(2659-2661)GAG>GAA	p.E887E	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	887	CSPG 6.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		AGACTGGTGGCTCATCGTTGA	0.418													19	69					0	0	0.008871	0	0	
IFNA13	3447	broad.mit.edu	37	9	21367455	21367455	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:21367455T>C	uc003zpa.2	-	1	621	c.555A>G	c.(553-555)AGA>AGG	p.R185R		NM_006900	NP_008831	P01562	IFNA1_HUMAN	interferon, alpha 13 precursor	184					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			ovary(1)	1				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.0173)		TCCTCCTTAATCTTTCTTGCA	0.413													12	135					0	0	0.002450	0	0	
TLN1	7094	broad.mit.edu	37	9	35713993	35713993	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:35713993G>A	uc003zxt.2	-	25	3560	c.3206C>T	c.(3205-3207)GCA>GTA	p.A1069V		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1069					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TCGAGCTGCTGCCTTCACTTC	0.453													6	57					0	0	0.001984	0	0	
PGM5	5239	broad.mit.edu	37	9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													8	68					0	0	0.006214	0	0	
TRPM3	80036	broad.mit.edu	37	9	73233803	73233803	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:73233803G>A	uc004aid.2	-	16	2546	c.2302C>T	c.(2302-2304)CGC>TGC	p.R768C	TRPM3_uc004ahu.2_Missense_Mutation_p.R598C|TRPM3_uc004ahv.2_Missense_Mutation_p.R570C|TRPM3_uc004ahw.2_Missense_Mutation_p.R640C|TRPM3_uc004ahx.2_Missense_Mutation_p.R627C|TRPM3_uc004ahy.2_Missense_Mutation_p.R630C|TRPM3_uc004ahz.2_Missense_Mutation_p.R617C|TRPM3_uc004aia.2_Missense_Mutation_p.R615C|TRPM3_uc004aib.2_Missense_Mutation_p.R605C|TRPM3_uc004aic.2_Missense_Mutation_p.R768C	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	793	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GAGTTCTTGCGCATGCGGAGC	0.622													7	41					0	0	0.003080	0	0	
GNAQ	2776	broad.mit.edu	37	9	80336284	80336284	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:80336284C>A	uc004akw.2	-	7	1076	c.1035G>T	c.(1033-1035)AAG>AAT	p.K345N	GNAQ_uc011lso.1_Missense_Mutation_p.K143N|GNAQ_uc004akv.1_5'Flank	NM_002072	NP_002063	P50148	GNAQ_HUMAN	guanine nucleotide binding protein (G protein),	345					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|glutamate signaling pathway|negative regulation of protein kinase activity|platelet activation|protein ADP-ribosylation|protein stabilization|regulation of action potential|regulation of catenin import into nucleus	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activator activity|GTPase activity|signal transducer activity			eye(136)|skin(44)|meninges(11)|ovary(1)|kidney(1)	193						GGATGGTGTCCTTGACGGCAG	0.517			Mis		uveal melanoma								10	41					1.58986e-06	1.71278e-06	0.008291	1	0	
CDK20	23552	broad.mit.edu	37	9	90585494	90585494	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:90585494G>A	uc004apr.2	-	5	858	c.552C>T	c.(550-552)GGC>GGT	p.G184G	CDK20_uc004aps.2_Intron|CDK20_uc004apt.2_Intron|CDK20_uc004apu.2_Intron	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3	184	Protein kinase.				cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1						ACAGATCGACGCCCTGGTCAT	0.592													6	17					0	0	0.001984	0	0	
ASPN	54829	broad.mit.edu	37	9	95228784	95228784	+	Nonsense_Mutation	SNP	G	A	A	rs143358512	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:95228784G>A	uc004ase.1	-	4	701	c.457C>T	c.(457-459)CGA>TGA	p.R153*	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ASPN_uc010mqy.1_Nonsense_Mutation_p.R153*	NM_017680	NP_060150	Q9BXN1	ASPN_HUMAN	asporin precursor	153	LRR 3.				bone mineralization|negative regulation of tooth mineralization|negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	calcium ion binding				0						TACAGCCTTCGCAACTTCTTT	0.358													18	106					0	0	0.006122	0	0	
ANKS6	203286	broad.mit.edu	37	9	101552769	101552769	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:101552769A>G	uc004ayu.2	-	2	500	c.479T>C	c.(478-480)GTG>GCG	p.V160A	ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	160	ANK 4.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				GAGCAGCTTCACCACACCCAG	0.637													3	14					0	0	0.004672	0	0	
IKBKAP	8518	broad.mit.edu	37	9	111644449	111644449	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:111644449G>T	uc004bdm.3	-	30	3761	c.3241C>A	c.(3241-3243)CTC>ATC	p.L1081I	IKBKAP_uc004bdl.2_Missense_Mutation_p.L732I|IKBKAP_uc011lwc.1_Missense_Mutation_p.L967I|IKBKAP_uc010mtq.2_Missense_Mutation_p.L732I|IKBKAP_uc004bdk.2_Missense_Mutation_p.L85I|IKBKAP_uc010mtp.2_RNA	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	1081					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						AACAGCAAGAGCACAGCTTCT	0.458													9	57					7.48243e-07	8.09386e-07	0.006214	1	0	
CTNNAL1	8727	broad.mit.edu	37	9	111746708	111746708	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:111746708T>A	uc004bdo.1	-	5	690	c.648A>T	c.(646-648)AAA>AAT	p.K216N	CTNNAL1_uc010mts.1_5'Flank|CTNNAL1_uc010mtt.1_Missense_Mutation_p.K216N|CTNNAL1_uc004bdp.1_Missense_Mutation_p.K216N	NM_003798	NP_003789	Q9UBT7	CTNL1_HUMAN	catenin, alpha-like 1	216					cell adhesion|Rho protein signal transduction	actin cytoskeleton|cytosol|plasma membrane	cadherin binding|structural molecule activity			ovary(1)	1				STAD - Stomach adenocarcinoma(157;0.0768)		TCTTTTCATCTTTCAAATCCT	0.333													11	68					0	0	0.008291	0	0	
RGS3	5998	broad.mit.edu	37	9	116269637	116269637	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:116269637G>A	uc004bhq.2	+	14	1365	c.1156G>A	c.(1156-1158)GGG>AGG	p.G386R	RGS3_uc004bhr.2_Missense_Mutation_p.G274R|RGS3_uc004bhs.2_Missense_Mutation_p.G276R|RGS3_uc004bht.2_Missense_Mutation_p.G105R|RGS3_uc010muy.2_Missense_Mutation_p.G105R|RGS3_uc004bhu.2_Missense_Mutation_p.G12R	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	386					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						ACCAGATGGCGGGGTCCTGCG	0.632													6	24					0	0	0.001984	0	0	
C9orf91	203197	broad.mit.edu	37	9	117405501	117405501	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:117405501C>T	uc004bjd.3	+	9	1154	c.937C>T	c.(937-939)CGA>TGA	p.R313*	C9orf91_uc004bje.3_Nonsense_Mutation_p.R292*|C9orf91_uc004bjf.3_Nonsense_Mutation_p.R212*	NM_153045	NP_694590	Q5VZI3	CI091_HUMAN	hypothetical protein LOC203197	313						integral to membrane				pancreas(1)	1						AATGGGGACACGACACACGAA	0.597													15	73					0	0	0.002450	0	0	
TNC	3371	broad.mit.edu	37	9	117846648	117846648	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:117846648C>T	uc004bjj.3	-	4	2333	c.1971G>A	c.(1969-1971)ACG>ACA	p.T657T	TNC_uc010mvf.2_Silent_p.T657T	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	657	Fibronectin type-III 1.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CGTGGGTGGGCGTGTACACGA	0.577													18	49					0	0	0.004990	0	0	
OR1J4	26219	broad.mit.edu	37	9	125281745	125281745	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:125281745A>G	uc011lyw.1	+	1	326	c.326A>G	c.(325-327)GAT>GGT	p.D109G		NM_001004452	NP_001004452	Q8NGS1	OR1J4_HUMAN	olfactory receptor, family 1, subfamily J,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTTTTCACTGATCTAGACAAT	0.418													24	111					0	0	0.003330	0	0	
LHX2	9355	broad.mit.edu	37	9	126783526	126783526	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:126783526C>T	uc004boe.1	+	4	1615	c.876C>T	c.(874-876)GAC>GAT	p.D292D	LHX2_uc010mwi.1_Silent_p.D300D	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	292	Homeobox.					nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACAACCCCGACGCCAAGGACT	0.607													5	36					0	0	0.001168	0	0	
LRSAM1	90678	broad.mit.edu	37	9	130223460	130223460	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:130223460C>T	uc004brb.1	+	8	675	c.330C>T	c.(328-330)AAC>AAT	p.N110N	LRSAM1_uc010mxk.1_Silent_p.N110N|LRSAM1_uc004brc.1_Silent_p.N110N|LRSAM1_uc004brd.1_Silent_p.N110N	NM_001005373	NP_001005373	Q6UWE0	LRSM1_HUMAN	leucine rich repeat and sterile alpha motif	110	LRR 4.				negative regulation of endocytosis|non-lytic virus budding|protein autoubiquitination|protein catabolic process|protein polyubiquitination|protein transport|ubiquitin-dependent endocytosis	cytoplasm|extracellular region|membrane part	hormone activity|ubiquitin-protein ligase activity|zinc ion binding				0						AGGTCTTAAACGTGGAAAGGA	0.323													10	62					0	0	0.008291	0	0	
C9orf119	375757	broad.mit.edu	37	9	131038608	131038608	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:131038608C>T	uc004bup.2	+	1	184	c.184C>T	c.(184-186)CCG>TCG	p.P62S	GOLGA2_uc011maw.1_5'Flank|GOLGA2_uc010mxw.2_5'Flank|GOLGA2_uc004bul.1_5'Flank|C9orf119_uc010mxx.1_Missense_Mutation_p.P62S	NM_001040011	NP_001035100	Q1ZZU3	SWI5_HUMAN	hypothetical protein LOC375757	62					double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0						AGGTCGCTCTCCGACTCCCGC	0.682													6	14					0	0	0.001984	0	0	
FAM73B	84895	broad.mit.edu	37	9	131830576	131830576	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:131830576C>T	uc004bxa.2	+	13	1555	c.1369C>T	c.(1369-1371)CGG>TGG	p.R457W	FAM73B_uc004bwy.2_RNA|FAM73B_uc004bwz.2_RNA|FAM73B_uc011mbn.1_Missense_Mutation_p.R457W|FAM73B_uc004bxb.2_5'Flank	NM_032809	NP_116198	Q7L4E1	FA73B_HUMAN	hypothetical protein LOC84895	457						integral to membrane				skin(1)	1						CGCCGTCCTGCGGAACCGCTG	0.617													8	39					0	0	0.004482	0	0	
CRAT	1384	broad.mit.edu	37	9	131862207	131862207	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:131862207G>A	uc004bxh.2	-	8	1305	c.1023C>T	c.(1021-1023)TAC>TAT	p.Y341Y	CRAT_uc004bxg.2_Silent_p.Y320Y|CRAT_uc004bxk.3_Silent_p.Y320Y	NM_000755	NP_000746	P43155	CACP_HUMAN	carnitine acetyltransferase precursor	341					energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA oxidase|transport	endoplasmic reticulum|mitochondrial inner membrane|peroxisomal matrix	carnitine O-acetyltransferase activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)	L-Carnitine(DB00583)	CAGCATGCTCGTACACAAGCC	0.607													14	46					0	0	0.003163	0	0	
USP20	10868	broad.mit.edu	37	9	132630616	132630616	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:132630616G>A	uc004bys.2	+	11	1234	c.1023G>A	c.(1021-1023)TCG>TCA	p.S341S	USP20_uc004byr.2_Silent_p.S341S|USP20_uc004byt.1_Silent_p.S341S	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	341					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				GTACAAACTCGGAGCAAGTGG	0.652													7	53					0	0	0.001984	0	0	
GTF3C4	9329	broad.mit.edu	37	9	135553410	135553410	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:135553410C>T	uc010mzv.2	+	2	662	c.404C>T	c.(403-405)GCC>GTC	p.A135V	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	135					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		AAATTCGCCGCCTCCAAGGAC	0.463													13	55					0	0	0.001855	0	0	
MED22	6837	broad.mit.edu	37	9	136208458	136208458	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:136208458G>A	uc004cdc.2	-	5	734	c.500C>T	c.(499-501)TCG>TTG	p.S167L	MED22_uc004cdd.2_3'UTR	NM_133640	NP_598395	Q15528	MED22_HUMAN	mediator complex subunit 22 isoform b	167					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|mediator complex|soluble fraction	protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.14e-06)|Epithelial(140;8.2e-06)|all cancers(34;6.94e-05)		CAGAGGGGCCGAGAGGCCATC	0.657													3	21					0	0	0.004672	0	0	
SNAPC4	6621	broad.mit.edu	37	9	139272011	139272011	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:139272011G>T	uc004chh.2	-	21	4277	c.4268C>A	c.(4267-4269)GCC>GAC	p.A1423D		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	1423					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		GGGGCATGTGGCTGTCGTGCA	0.672													6	25					8.12818e-05	8.54791e-05	0.001984	1	0	
SNAPC4	6621	broad.mit.edu	37	9	139287157	139287157	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:139287157G>A	uc004chh.2	-	7	714	c.705C>T	c.(703-705)GGC>GGT	p.G235G		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	235					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CGGCTTCCCTGCCCTGCTTCT	0.627													11	75					0	0	0.013537	0	0	
SEC16A	9919	broad.mit.edu	37	9	139358902	139358902	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:139358902C>T	uc004chx.2	-	9	4725	c.4416G>A	c.(4414-4416)CAG>CAA	p.Q1472Q	SEC16A_uc004chv.3_Silent_p.Q862Q|SEC16A_uc004chw.2_Silent_p.Q1472Q|SEC16A_uc010nbn.2_Silent_p.Q1472Q	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1294					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		CCAAGGCCGGCTGTCCTTCTG	0.542													3	23					0	0	0.004672	0	0	
FAM69B	138311	broad.mit.edu	37	9	139612048	139612048	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:139612048G>A	uc004cik.2	+	2	177	c.83G>A	c.(82-84)AGG>AAG	p.R28K		NM_152421	NP_689634	Q5VUD6	FA69B_HUMAN	hypothetical protein LOC138311	28	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane					0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.03e-05)|Epithelial(140;0.00013)		CCAGGCCTCAGGGTCCGCTGC	0.677													6	17					0	0	0.001168	0	0	
ABCA2	20	broad.mit.edu	37	9	139907311	139907311	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:139907311G>A	uc011mem.1	-	30	5079	c.4931C>T	c.(4930-4932)GCG>GTG	p.A1644V	ABCA2_uc011mel.1_Missense_Mutation_p.A1645V|ABCA2_uc004ckl.1_Missense_Mutation_p.A1575V|ABCA2_uc004ckm.1_Missense_Mutation_p.A1675V|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1644					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GGTGCCCTGCGCAGAGCAGGT	0.687													3	11					0	0	0.004672	0	0	
ARRDC1	92714	broad.mit.edu	37	9	140508544	140508544	+	Missense_Mutation	SNP	G	A	A	rs146599172		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:140508544G>A	uc004cns.2	+	5	570	c.496G>A	c.(496-498)GTG>ATG	p.V166M	ARRDC1_uc004cnt.2_Missense_Mutation_p.V41M|ARRDC1_uc004cnu.2_RNA|ARRDC1_uc004cnv.2_Missense_Mutation_p.V146M|ARRDC1_uc004cnw.2_Missense_Mutation_p.V41M|ARRDC1_uc004cnp.1_Missense_Mutation_p.V166M|ARRDC1_uc004cnq.1_Missense_Mutation_p.V148M|ARRDC1_uc011mfb.1_Missense_Mutation_p.V41M|ARRDC1_uc004cnx.1_Missense_Mutation_p.V41M|ARRDC1_uc004cny.2_RNA	NM_152285	NP_689498	Q8N5I2	ARRD1_HUMAN	arrestin domain containing 1	166											0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000273)|Epithelial(140;0.000464)		GACGGGCAGCGTGGTCCTCAC	0.637													21	97					0	0	0.008871	0	0	
TUBBP5	643224	broad.mit.edu	37	9	141070111	141070111	+	Silent	SNP	T	C	C	rs139643347	by1000genomes	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:141070111T>C	uc004com.2	+	3	270	c.9T>C	c.(7-9)TCT>TCC	p.S3S	TUBBP5_uc010ncq.2_Silent_p.S117S					RecName: Full=Putative tubulin beta-4q chain;												0						CCATGGACTCTGTGCGCTCGG	0.697													6	65					0	0	0.013537	0	0	
P2RY8	286530	broad.mit.edu	37	X	1584880	1584880	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:1584880G>A	uc004cpz.2	-	2	820	c.572C>T	c.(571-573)GCC>GTC	p.A191V		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	191	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GAGGAACACGGCCCACATGGC	0.612			T	CRLF2	B-ALL|Downs associated ALL								5	35					0	0	0.000602	0	0	
NLGN4X	57502	broad.mit.edu	37	X	5821701	5821701	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:5821701A>T	uc010ndh.2	-	5	1519	c.1018T>A	c.(1018-1020)TTC>ATC	p.F340I	NLGN4X_uc004crp.2_Missense_Mutation_p.F360I|NLGN4X_uc004crq.2_Missense_Mutation_p.F340I|NLGN4X_uc010ndi.2_Missense_Mutation_p.F377I|NLGN4X_uc004crr.2_Missense_Mutation_p.F340I|NLGN4X_uc010ndj.2_Missense_Mutation_p.F340I	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	340	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						ACCGGCCCGAAGGCTATGTGG	0.582													8	80					0	0	0.003080	0	0	
WWC3	55841	broad.mit.edu	37	X	10077877	10077877	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:10077877C>T	uc004csx.3	+	9	989	c.791C>T	c.(790-792)GCC>GTC	p.A264V	WWC3_uc010nds.2_5'UTR|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	264	Potential.									ovary(4)	4						CCAAGCACGGCCGAGGCTGAC	0.617													18	89					0	0	0.006122	0	0	
TLR8	51311	broad.mit.edu	37	X	12939421	12939421	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:12939421C>T	uc004cve.2	+	2	2330	c.2262C>T	c.(2260-2262)TCC>TCT	p.S754S	TLR8_uc004cvd.2_Silent_p.S772S	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	754	LRR 23.|Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						TCAACAAATCCGCACTTGAAA	0.423													28	93					0	0	0.005443	0	0	
GRPR	2925	broad.mit.edu	37	X	16142438	16142438	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:16142438T>C	uc004cxj.2	+	1	1015	c.362T>C	c.(361-363)CTT>CCT	p.L121P		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	121	Helical; Name=3; (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					TTTATACAGCTTACCTCTGTT	0.527											OREG0019682	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	89					0	0	0.002780	0	0	
CTPS2	56474	broad.mit.edu	37	X	16717193	16717193	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:16717193C>T	uc004cxk.2	-	3	934	c.190G>A	c.(190-192)GGT>AGT	p.G64S	CTPS2_uc004cxl.2_Missense_Mutation_p.G64S|CTPS2_uc004cxm.2_Missense_Mutation_p.G64S	NM_001144002	NP_001137474	Q9NRF8	PYRG2_HUMAN	cytidine triphosphate synthase II	64					glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine nucleotide biosynthetic process	cytosol	ATP binding|CTP synthase activity			ovary(1)	1	Hepatocellular(33;0.0997)					ACTTCTCCACCATCATTTAAG	0.313													20	126					0	0	0.008871	0	0	
SYAP1	94056	broad.mit.edu	37	X	16778386	16778386	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:16778386G>T	uc004cxp.2	+	9	1056	c.963G>T	c.(961-963)CAG>CAT	p.Q321H	SYAP1_uc004cxo.2_Missense_Mutation_p.A321S|SYAP1_uc011miv.1_Missense_Mutation_p.Q287H	NM_032796	NP_116185	Q96A49	SYAP1_HUMAN	SYAP1 protein	321										skin(1)	1	Hepatocellular(33;0.0997)					AAGAACTGCAGCAGGAACTTC	0.373													25	108					1.10923e-09	1.22618e-09	0.002780	1	0	
SH3KBP1	30011	broad.mit.edu	37	X	19610206	19610206	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:19610206G>A	uc004czm.2	-	11	1433	c.1117C>T	c.(1117-1119)CCA>TCA	p.P373S	SH3KBP1_uc011mje.1_Missense_Mutation_p.P112S|SH3KBP1_uc011mjf.1_Missense_Mutation_p.P135S|SH3KBP1_uc004czl.2_Missense_Mutation_p.P336S	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	373	Pro-rich.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						GTTCTGTTTGGAAGCATTTCT	0.408													17	73					0	0	0.004007	0	0	
PTCHD1	139411	broad.mit.edu	37	X	23397938	23397938	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:23397938C>T	uc004dal.3	+	2	590	c.582C>T	c.(580-582)GGC>GGT	p.G194G	PTCHD1_uc010nfu.1_Silent_p.G194G	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	194					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						AGCTTGGGGGCGTCACTGTGC	0.527													14	147					0	0	0.003163	0	0	
ZFX	7543	broad.mit.edu	37	X	24226349	24226349	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:24226349G>A	uc004dbf.2	+	7	1213	c.955G>A	c.(955-957)GCT>ACT	p.A319T	ZFX_uc004dbd.1_Missense_Mutation_p.A319T|ZFX_uc010nfx.1_Missense_Mutation_p.A90T|ZFX_uc004dbe.2_Missense_Mutation_p.A319T|ZFX_uc011mjv.1_Missense_Mutation_p.A358T|ZFX_uc010nfy.1_Intron|ZFX_uc010nfz.2_Missense_Mutation_p.A22T	NM_003410	NP_003401	P17010	ZFX_HUMAN	zinc finger protein, X-linked	319					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(2)	2						TGCTGAAATCGCTGACGAAGT	0.438													14	58					0	0	0.001855	0	0	
DCAF8L1	139425	broad.mit.edu	37	X	27999217	27999217	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:27999217C>T	uc004dbx.1	-	1	350	c.235G>A	c.(235-237)GTC>ATC	p.V79I		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	79	Glu-rich.									ovary(3)|skin(1)	4						TCAAGTTCGACGTCTTCACTT	0.393													17	110					0	0	0.007413	0	0	
DMD	1756	broad.mit.edu	37	X	31986498	31986498	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:31986498C>T	uc004dda.1	-	45	6816	c.6572G>A	c.(6571-6573)CGG>CAG	p.R2191Q	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Missense_Mutation_p.R847Q|DMD_uc004dcx.2_Missense_Mutation_p.R850Q|DMD_uc004dcz.2_Missense_Mutation_p.R2068Q|DMD_uc004dcy.1_Missense_Mutation_p.R2187Q|DMD_uc004ddb.1_Missense_Mutation_p.R2183Q|DMD_uc010ngo.1_Missense_Mutation_p.R100Q|DMD_uc010ngn.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2191	Spectrin 15.		R -> W.		muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTCCTGCCACCGCAGATTCAG	0.408													21	87					0	0	0.002780	0	0	
DMD	1756	broad.mit.edu	37	X	32481587	32481587	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:32481587A>C	uc004dda.1	-	25	3645	c.3401T>G	c.(3400-3402)CTT>CGT	p.L1134R	DMD_uc004dcz.2_Missense_Mutation_p.L1011R|DMD_uc004dcy.1_Missense_Mutation_p.L1130R|DMD_uc004ddb.1_Missense_Mutation_p.L1126R|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1134	Spectrin 7.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTGAGTGTTAAGTTCTTTGAG	0.433													7	22					0	0	0.003080	0	0	
CYBB	1536	broad.mit.edu	37	X	37655252	37655252	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:37655252A>G	uc004ddr.2	+	6	593	c.532A>G	c.(532-534)ACT>GCT	p.T178A	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Missense_Mutation_p.T146A|CYBB_uc011mkg.1_Intron	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	178	Helical; (Potential).|Ferric oxidoreductase.		T -> P (in AMCBX2).		electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						GGCAGGCATCACTGGAGTTGT	0.368													6	74					0	0	0.001984	0	0	
MED14	9282	broad.mit.edu	37	X	40522275	40522275	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:40522275G>A	uc004dex.3	-	26	3726	c.3586C>T	c.(3586-3588)CCC>TCC	p.P1196S	MED14_uc004dey.1_Missense_Mutation_p.P98S	NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	1196					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						GCCAGGCCGGGCACAAGGCCT	0.488													4	23					0	0	0.000602	0	0	
ZNF674	641339	broad.mit.edu	37	X	46387797	46387797	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:46387797G>A	uc004dgr.2	-	5	453	c.226C>T	c.(226-228)CGG>TGG	p.R76W	ZNF674_uc011mlg.1_Missense_Mutation_p.R76W|ZNF674_uc010nhm.2_Missense_Mutation_p.R76W	NM_001039891	NP_001034980	Q2M3X9	ZN674_HUMAN	zinc finger family member 674 isoform 1	76	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)	2						GCACAGGTCCGTACCGGGGTC	0.587													17	62					0	0	0.006122	0	0	
TBC1D25	4943	broad.mit.edu	37	X	48417659	48417659	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:48417659C>T	uc004dka.1	+	5	741	c.630C>T	c.(628-630)CAC>CAT	p.H210H	TBC1D25_uc011mly.1_Silent_p.H152H|TBC1D25_uc004dkb.1_Translation_Start_Site|TBC1D25_uc011mlz.1_Translation_Start_Site|TBC1D25_uc011mma.1_Translation_Start_Site|TBC1D25_uc004dkc.1_Translation_Start_Site|TBC1D25_uc011mmb.1_Silent_p.H214H|TBC1D25_uc011mmc.1_Translation_Start_Site|TBC1D25_uc011mmd.1_Translation_Start_Site	NM_002536	NP_002527	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	210						intracellular	Rab GTPase activator activity			ovary(1)	1						ACCTGAACCACGAGGGCCAGC	0.582													7	16					0	0	0.003080	0	0	
HDAC6	10013	broad.mit.edu	37	X	48674553	48674553	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:48674553A>G	uc011mmi.1	+	18	1594	c.1499A>G	c.(1498-1500)CAC>CGC	p.H500R	HDAC6_uc004dks.1_Missense_Mutation_p.H500R|HDAC6_uc010nig.1_Missense_Mutation_p.H348R|HDAC6_uc004dkt.1_Missense_Mutation_p.H500R|HDAC6_uc011mmk.1_Missense_Mutation_p.H481R|HDAC6_uc004dkv.1_Missense_Mutation_p.H148R|HDAC6_uc004dkw.1_Missense_Mutation_p.H148R	NM_006044	NP_006035	Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	500	Histone deacetylase 2.				aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4					Vorinostat(DB02546)	GCTAGCCACCACCCTGAGGTA	0.647													18	67					0	0	0.008871	0	0	
PQBP1	10084	broad.mit.edu	37	X	48759692	48759692	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:48759692C>T	uc004dle.2	+	5	664	c.475C>T	c.(475-477)CGG>TGG	p.R159W	PQBP1_uc004dlf.2_Missense_Mutation_p.R159W|PQBP1_uc004dlg.2_Missense_Mutation_p.R159W|PQBP1_uc004dld.2_Intron|PQBP1_uc004dlh.2_Missense_Mutation_p.R159W|PQBP1_uc004dli.2_Missense_Mutation_p.R159W|PQBP1_uc004dlj.1_Missense_Mutation_p.R159W|PQBP1_uc004dln.2_Missense_Mutation_p.R159W|PQBP1_uc010nih.2_RNA|PQBP1_uc010nii.2_Missense_Mutation_p.R117W|PQBP1_uc004dlk.2_Intron|PQBP1_uc004dll.2_Intron|PQBP1_uc004dlm.2_Missense_Mutation_p.R117W|PQBP1_uc010nij.2_Intron	NM_001032382	NP_001027554	O60828	PQBP1_HUMAN	polyglutamine binding protein 1	159	3-5.|Arg-rich.|7 X 2 AA tandem repeats of [DE]-R.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|transcription coactivator activity			large_intestine(1)	1						AGACAGGGAACGGGATCGGGA	0.617													5	22					0	0	0.000602	0	0	
WDR45	11152	broad.mit.edu	37	X	48933234	48933234	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:48933234C>T	uc004dmk.1	-	8	867	c.695G>A	c.(694-696)CGC>CAC	p.R232H	PRAF2_uc004dmh.2_5'Flank|PRAF2_uc004dmi.2_5'Flank|PRAF2_uc011mmt.1_Missense_Mutation_p.R130H|WDR45_uc004dmj.1_Missense_Mutation_p.R193H|WDR45_uc004dml.1_Missense_Mutation_p.R233H|WDR45_uc004dmm.1_Missense_Mutation_p.R197H|WDR45_uc010nim.1_Missense_Mutation_p.R232H|WDR45_uc004dmn.1_Missense_Mutation_p.R123H|WDR45_uc004dmo.1_Missense_Mutation_p.R255H|WDR45_uc004dmp.1_Missense_Mutation_p.R233H	NM_001029896	NP_001025067	Q9Y484	WIPI4_HUMAN	WD repeat domain 45 isoform 2	232					autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1						AGTGCCTCGGCGCAGCTCCAC	0.567													5	34					0	0	0.001168	0	0	
GPKOW	27238	broad.mit.edu	37	X	48973467	48973467	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:48973467A>G	uc004dmr.2	-	6	837	c.830T>C	c.(829-831)GTG>GCG	p.V277A		NM_015698	NP_056513	Q92917	GPKOW_HUMAN	G patch domain and KOW motifs	277						nucleus	nucleic acid binding			ovary(2)	2						CCGGCTCCCCACAGCCAGACG	0.552													6	49					0	0	0.001168	0	0	
DGKK	139189	broad.mit.edu	37	X	50136226	50136226	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:50136226C>T	uc010njr.1	-	9	1579	c.1519G>A	c.(1519-1521)GTC>ATC	p.V507I		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	507	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					CGGAGGAAGACGATCCCCTGA	0.453													12	17					0	0	0.010729	0	0	
KDM5C	8242	broad.mit.edu	37	X	53240993	53240993	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:53240993A>G	uc004drz.2	-	9	1751	c.1218T>C	c.(1216-1218)GCT>GCC	p.A406A	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Silent_p.A339A|KDM5C_uc004dsa.2_Silent_p.A405A	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	406					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						TGAAGTAGTCAGCTTTAAAGG	0.537			N|F|S		clear cell renal carcinoma								7	32					0	0	0.003080	0	0	
IQSEC2	23096	broad.mit.edu	37	X	53279577	53279577	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:53279577G>A	uc004dsd.2	-	5	2382	c.2181C>T	c.(2179-2181)ACC>ACT	p.T727T	IQSEC2_uc004dsc.2_Silent_p.T522T	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	717					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						TGCACAGGCCGGTAGCCGGAG	0.577													9	23					0	0	0.004482	0	0	
FAM120C	54954	broad.mit.edu	37	X	54209257	54209257	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:54209257C>T	uc004dsz.3	-	1	458	c.375G>A	c.(373-375)GCG>GCA	p.A125A	FAM120C_uc011moh.1_Silent_p.A125A|FAM120C_uc004dta.2_Silent_p.A125A	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954	125										ovary(1)|central_nervous_system(1)	2						GCCGCGGCAGCGCCGAGCCGG	0.721													3	7					0	0	0.009096	0	0	
PFKFB1	5207	broad.mit.edu	37	X	54986275	54986275	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:54986275C>T	uc004dty.1	-	4	440	c.369G>A	c.(367-369)GAG>GAA	p.E123E	PFKFB1_uc010nkd.1_Silent_p.E109E|PFKFB1_uc011mol.1_Silent_p.E58E	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,	123	6-phosphofructo-2-kinase.				energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						CATGACCTTCCTCATGGCTGA	0.378													4	13					0	0	0.000602	0	0	
ALAS2	212	broad.mit.edu	37	X	55042055	55042055	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:55042055C>T	uc004dua.3	-	8	1262	c.1124G>A	c.(1123-1125)CGT>CAT	p.R375H	ALAS2_uc004dub.3_Missense_Mutation_p.R362H|ALAS2_uc004dud.3_Missense_Mutation_p.R338H	NM_000032	NP_000023	P22557	HEM0_HUMAN	5-aminolevulinate synthase 2 isoform a	375					cellular iron ion homeostasis|erythrocyte differentiation|heme biosynthetic process|hemoglobin biosynthetic process|oxygen homeostasis|response to hypoxia	mitochondrial inner membrane|mitochondrial matrix	5-aminolevulinate synthase activity|coenzyme binding|glycine binding|protein binding|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(1)	1					Glycine(DB00145)	AATTCCATCACGCTCCCCAAT	0.517													6	46					0	0	0.001984	0	0	
ALAS2	212	broad.mit.edu	37	X	55052394	55052394	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:55052394G>A	uc004dua.3	-	2	178	c.40C>T	c.(40-42)CTT>TTT	p.L14F	ALAS2_uc004dub.3_Missense_Mutation_p.L38F|ALAS2_uc004dud.3_Missense_Mutation_p.L14F	NM_000032	NP_000023	P22557	HEM0_HUMAN	5-aminolevulinate synthase 2 isoform a	14					cellular iron ion homeostasis|erythrocyte differentiation|heme biosynthetic process|hemoglobin biosynthetic process|oxygen homeostasis|response to hypoxia	mitochondrial inner membrane|mitochondrial matrix	5-aminolevulinate synthase activity|coenzyme binding|glycine binding|protein binding|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(1)	1					Glycine(DB00145)	CCCCGGGCAAGCACTGGGCAG	0.557													7	35					0	0	0.001984	0	0	
USP51	158880	broad.mit.edu	37	X	55515175	55515175	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:55515175G>A	uc004dun.1	-	2	277	c.198C>T	c.(196-198)CCC>CCT	p.P66P	USP51_uc011moo.1_Silent_p.P11P	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	66					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						CCTCCGGCGCGGGCTCACGCT	0.647													5	17					0	0	0.001168	0	0	
MSN	4478	broad.mit.edu	37	X	64887722	64887722	+	Splice_Site	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:64887722T>C	uc004dwf.2	+	1	210	c.12_splice	c.e1+2	p.T4_splice		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin						leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						CCCAAAACGGTGAGTGCCGGA	0.642			T	ALK	ALCL								5	21					0	0	0.001168	0	0	
RAB41	347517	broad.mit.edu	37	X	69502190	69502190	+	Silent	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:69502190C>T	uc004dyc.2	+	1	123	c.123C>T	c.(121-123)AGC>AGT	p.S41S	RAB41_uc010nkv.2_Silent_p.S31S	NM_001032726	NP_001027898	Q5JT25	RAB41_HUMAN	RAB41, member RAS oncogene family	41	GTP (By similarity).				protein transport|small GTPase mediated signal transduction		GTP binding			ovary(2)|breast(2)	4						GAGAGCAGAGCGGTGTGGGTC	0.552													5	37					0	0	0.001168	0	0	
SLC7A3	84889	broad.mit.edu	37	X	70149828	70149828	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:70149828C>T	uc004dyn.2	-	2	178	c.20G>A	c.(19-21)CGC>CAC	p.R7H	SLC7A3_uc004dyo.2_Missense_Mutation_p.R7H	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	7	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	ACCAAATCTGCGAAATGCTTG	0.502													9	55					0	0	0.010729	0	0	
FOXO4	4303	broad.mit.edu	37	X	70316714	70316714	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:70316714G>T	uc004dys.1	+	1	689	c.336G>T	c.(334-336)CAG>CAT	p.Q112H	FOXO4_uc010nkz.2_Missense_Mutation_p.Q112H|FOXO4_uc004dyt.1_Splice_Site_p.A58_splice	NM_005938	NP_005929	P98177	FOXO4_HUMAN	forkhead box O4	112	Fork-head.				cell cycle arrest|cell differentiation|embryo development|G1 phase of mitotic cell cycle|insulin receptor signaling pathway|mitotic cell cycle G2/M transition DNA damage checkpoint|muscle organ development|negative regulation of angiogenesis|negative regulation of cell proliferation|negative regulation of smooth muscle cell differentiation|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			central_nervous_system(2)|prostate(1)	3	Renal(35;0.156)					TCATCAGCCAGGCCATTGAAA	0.587													4	13					0.00909568	0.00928865	0.009096	1	0	
CXorf65	158830	broad.mit.edu	37	X	70326403	70326403	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:70326403A>G	uc011mpo.1	-	1	18	c.4T>C	c.(4-6)TTC>CTC	p.F2L	CXorf65_uc011mpp.1_5'UTR	NM_001025265	NP_001020436	A6NEN9	CX065_HUMAN	hypothetical protein LOC158830	2										central_nervous_system(1)	1						ATGAAGATGAACATGCCCTCA	0.537													17	110					0	0	0.004990	0	0	
ATP7A	538	broad.mit.edu	37	X	77267084	77267084	+	Silent	SNP	T	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:77267084T>C	uc004ecx.3	+	9	2245	c.2085T>C	c.(2083-2085)CTT>CTC	p.L695L	ATP7A_uc004ecw.2_3'UTR	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	695	Extracellular (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						TGATCAACCTTCATTCTTCTA	0.388													31	186					0	0	0.009535	0	0	
NAP1L3	4675	broad.mit.edu	37	X	92927974	92927974	+	Silent	SNP	C	T	T	rs139070318		TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:92927974C>T	uc004efq.2	-	1	635	c.330G>A	c.(328-330)GCG>GCA	p.A110A	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	110					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						TGTTTCTAAGCGCTTGCACAC	0.468													4	33					0	0	0.009096	0	0	
TNMD	64102	broad.mit.edu	37	X	99854133	99854133	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:99854133G>A	uc004efy.3	+	6	924	c.698G>A	c.(697-699)CGT>CAT	p.R233H	TNMD_uc004efz.2_3'UTR	NM_022144	NP_071427	Q9H2S6	TNMD_HUMAN	tenomodulin	233	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						GAGAAGACCCGTCACGCCAGA	0.428													4	20					0	0	0.009096	0	0	
MID2	11043	broad.mit.edu	37	X	107169389	107169389	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:107169389C>T	uc004enl.2	+	9	2236	c.1663C>T	c.(1663-1665)CAG>TAG	p.Q555*	MID2_uc004enk.2_Nonsense_Mutation_p.Q525*	NM_012216	NP_036348	Q9UJV3	TRIM1_HUMAN	midline 2 isoform 1	555	B30.2/SPRY.					centrosome|microtubule	ligase activity|zinc ion binding			ovary(1)	1						TGATGGATTGCAGATGGAGAA	0.408													24	102					0	0	0.003330	0	0	
COL4A6	1288	broad.mit.edu	37	X	107423838	107423838	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:107423838G>A	uc004enw.3	-	25	2144	c.2041C>T	c.(2041-2043)CGA>TGA	p.R681*	COL4A6_uc004env.3_Nonsense_Mutation_p.R680*|COL4A6_uc011msn.1_Nonsense_Mutation_p.R680*|COL4A6_uc010npk.2_Nonsense_Mutation_p.R680*	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	681	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						GGGAGGCCTCGAGACCCTTTA	0.507									Alport_syndrome_with_Diffuse_Leiomyomatosis				3	24					0	0	0.004672	0	0	
GUCY2F	2986	broad.mit.edu	37	X	108635326	108635326	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:108635326A>G	uc004eod.3	-	14	2871	c.2595T>C	c.(2593-2595)GTT>GTC	p.V865V	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	865	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						GAGATTCAGCAACTGATCTGA	0.443													9	44					0	0	0.004482	0	0	
SLC25A43	203427	broad.mit.edu	37	X	118540544	118540544	+	Silent	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:118540544C>A	uc004erd.2	+	2	741	c.397C>A	c.(397-399)CGG>AGG	p.R133R	SLC25A43_uc004erc.1_RNA|SLC25A43_uc011mtt.1_Silent_p.R133R	NM_145305	NP_660348	Q8WUT9	S2543_HUMAN	mitochondrial solute carrier protein	133	Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			skin(1)	1						CATCAAAACCCGGTTGATCAT	0.502													20	61					8.00594e-06	8.57259e-06	0.007413	1	0	
ODZ1	10178	broad.mit.edu	37	X	123787483	123787483	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:123787483G>T	uc004euj.2	-	7	1383	c.1319C>A	c.(1318-1320)TCT>TAT	p.S440Y	ODZ1_uc011muj.1_Missense_Mutation_p.S439Y|ODZ1_uc010nqy.2_Missense_Mutation_p.S440Y	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	440	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TCCCAGCAGAGAGTCCTTGGC	0.393													26	147					3.28513e-13	3.68143e-13	0.003954	1	0	
BCORL1	63035	broad.mit.edu	37	X	129147983	129147983	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:129147983C>T	uc004evb.1	+	4	1349	c.1235C>T	c.(1234-1236)CCG>CTG	p.P412L	BCORL1_uc010nrd.1_Missense_Mutation_p.P314L	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	412	Pro-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						gcacccatcccggcctccTTC	0.254													7	17					0	0	0.001984	0	0	
ZNF280C	55609	broad.mit.edu	37	X	129364678	129364678	+	Silent	SNP	A	G	G			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:129364678A>G	uc004evm.2	-	9	949	c.795T>C	c.(793-795)ACT>ACC	p.T265T	ZNF280C_uc010nrf.1_Silent_p.T265T	NM_017666	NP_060136	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	265					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)	3						CCAAAAATTTAGTTATCATGT	0.323													12	48					0	0	0.001855	0	0	
HS6ST2	90161	broad.mit.edu	37	X	132092382	132092382	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:132092382G>A	uc011mve.1	-	2	665	c.249C>T	c.(247-249)TGC>TGT	p.C83C	HS6ST2_uc011mvb.1_5'Flank|HS6ST2_uc011mvc.1_5'Flank|HS6ST2_uc011mvd.1_Silent_p.C83C	NM_147175	NP_671704	Q96MM7	H6ST2_HUMAN	heparan sulfate 6-O-sulfotransferase 2 isoform	83	Lumenal (Potential).					integral to membrane	sulfotransferase activity				0	Acute lymphoblastic leukemia(192;0.000127)					AAAGCGGGGCGCACGCGGCTC	0.721													3	8					0	0	0.004672	0	0	
FAM127C	441518	broad.mit.edu	37	X	134156235	134156235	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:134156235C>A	uc004eyc.1	-	1	332	c.255G>T	c.(253-255)AAG>AAT	p.K85N		NM_001078173	NP_001071641	Q17RB0	F127C_HUMAN	family with sequence similarity 127, member C	85											0	Acute lymphoblastic leukemia(192;0.000127)					GGCTCTCCTTCTTGATGTAGG	0.617													12	45					0.00010058	0.000105669	0.013537	1	0	
FMR1NB	158521	broad.mit.edu	37	X	147062865	147062865	+	Translation_Start_Site	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:147062865C>T	uc004fcm.2	+	1	17	c.-57C>T	c.(-59--55)CACGG>CATGG			NM_152578	NP_689791	Q8N0W7	FMR1N_HUMAN	fragile X mental retardation 1 neighbor							integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TTCTGGGCCACGGACTGCCGG	0.662													6	38					0	0	0.001168	0	0	
MAGEA11	4110	broad.mit.edu	37	X	148797716	148797716	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:148797716G>A	uc004fdq.2	+	5	672	c.570G>A	c.(568-570)GGG>GGA	p.G190G	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Silent_p.G161G	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	190						cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CCATCTTTGGGAGCCTATCTG	0.547													20	66					0	0	0.008871	0	0	
FAM58A	92002	broad.mit.edu	37	X	152860096	152860096	+	Missense_Mutation	SNP	C	T	T	rs150562029	byFrequency	TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:152860096C>T	uc010nug.2	-	2	255	c.152G>A	c.(151-153)CGC>CAC	p.R51H				Q8N1B3	FA58A_HUMAN	RecName: Full=Cyclin-related protein FAM58B;	113					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TTCCCAGAAGCGGGAGTCCAA	0.562													8	53					0	0	0.003080	0	0	
L1CAM	3897	broad.mit.edu	37	X	153128940	153128940	+	Silent	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:153128940G>A	uc004fjb.2	-	26	3630	c.3522C>T	c.(3520-3522)GGC>GGT	p.G1174G	L1CAM_uc004fjc.2_Silent_p.G1174G|L1CAM_uc010nuo.2_Silent_p.G1169G	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	1174	Cytoplasmic (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACCTGTACTCGCCGAAGGTCT	0.612													10	19					0	0	0.010729	0	0	
HCFC1	3054	broad.mit.edu	37	X	153228708	153228708	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:153228708C>T	uc004fjp.2	-	4	1208	c.680G>A	c.(679-681)TGC>TAC	p.C227Y		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	227	Kelch 4.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCCCAGCCTGCAGCCACTCAT	0.607													10	107					0	0	0.013537	0	0	
UBL4A	8266	broad.mit.edu	37	X	153714222	153714222	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chrX:153714222G>A	uc004flo.2	-	3	260	c.251C>T	c.(250-252)GCC>GTC	p.A84V		NM_014235	NP_055050	P11441	UBL4A_HUMAN	ubiquitin-like 4	84					protein modification process|tail-anchored membrane protein insertion into ER membrane|transport	BAT3 complex	small conjugating protein ligase activity				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CAGCCTCTGGGCCTCGCCTTC	0.602													25	110					0	0	0.004656	0	0	
CREB3L4	148327	broad.mit.edu	37	1	153946103	153946103	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:153946103delT	uc001fdn.3	+	9	1171	c.905delT	c.(904-906)CTTfs	p.L302fs	CREB3L4_uc010pef.1_Frame_Shift_Del_p.L155fs|CREB3L4_uc001fdo.3_Frame_Shift_Del_p.L282fs|CREB3L4_uc001fdm.1_Frame_Shift_Del_p.L302fs|CREB3L4_uc001fdp.1_Frame_Shift_Del_p.L282fs|CREB3L4_uc001fdr.2_Frame_Shift_Del_p.L302fs|CREB3L4_uc001fdq.2_Frame_Shift_Del_p.L282fs	NM_130898	NP_570968	Q8TEY5	CR3L4_HUMAN	cAMP responsive element binding protein 3-like	302	Helical; Signal-anchor for type II membrane protein; (Potential).				response to unfolded protein	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			CAGATTCTTCTTTTTTCCCTG	0.552													6	13	---	---	---	---						.
FBXO28	23219	broad.mit.edu	37	1	224301979	224301980	+	Frame_Shift_Ins	INS	-	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr1:224301979_224301980insC	uc001hoh.2	+	1	189_190	c.148_149insC	c.(148-150)GCCfs	p.A50fs	FBXO28_uc009xef.2_Frame_Shift_Ins_p.A50fs|FBXO28_uc010pvc.1_5'UTR	NM_015176	NP_055991	Q9NVF7	FBX28_HUMAN	F-box protein 28 isoform a	50										ovary(2)|kidney(2)|lung(1)	5	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.0363)		GGCGCTCCCAGCCCCCGCGCTG	0.668													2	4	---	---	---	---						.
MYO3A	53904	broad.mit.edu	37	10	26385330	26385330	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr10:26385330delT	uc001isn.2	+	16	1943	c.1583delT	c.(1582-1584)ATTfs	p.I528fs	MYO3A_uc009xko.1_Frame_Shift_Del_p.I528fs|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Frame_Shift_Del_p.I528fs	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	528	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						AATTTTCATATTTTTTACTAC	0.313													10	23	---	---	---	---						.
ATP12A	479	broad.mit.edu	37	13	25280558	25280558	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr13:25280558delC	uc001upp.2	+	15	2313	c.2126delC	c.(2125-2127)TCCfs	p.S709fs	ATP12A_uc010aaa.2_Frame_Shift_Del_p.S715fs	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	709	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	GCCCGGACATCCCCCCAGCAG	0.567													18	29	---	---	---	---						.
CNIH	10175	broad.mit.edu	37	14	54896992	54896992	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:54896992delA	uc001xat.1	-	4	497	c.394delT	c.(394-396)TACfs	p.Y132fs	CNIH_uc001xav.1_Intron	NM_005776	NP_005767	O95406	CNIH_HUMAN	cornichon-like	132	Helical; (Potential).				immune response|intracellular signal transduction|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane|integral to membrane					0				GBM - Glioblastoma multiforme(112;0.00341)		TATAGGTAGTAAAAAAATGCT	0.348													20	35	---	---	---	---						.
PPP1R13B	23368	broad.mit.edu	37	14	104216136	104216136	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr14:104216136delT	uc001yof.1	-	8	1247	c.964delA	c.(964-966)ATTfs	p.I322fs	PPP1R13B_uc001yog.1_Frame_Shift_Del_p.I189fs	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	322					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				CATGCCTGAATTTTTTTCCCA	0.428													22	39	---	---	---	---						.
METRN	79006	broad.mit.edu	37	16	767217	767218	+	Frame_Shift_Ins	INS	-	C	C			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr16:767217_767218insC	uc002cjd.2	+	4	829_830	c.712_713insC	c.(712-714)ACCfs	p.T238fs	uc010bra.1_5'Flank	NM_024042	NP_076947	Q9UJH8	METRN_HUMAN	meteorin, glial cell differentiation regulator	238											0		Hepatocellular(780;0.00335)				CTCCATTCGTACCCCACTGCGC	0.698													4	9	---	---	---	---						.
SMCHD1	23347	broad.mit.edu	37	18	2706440	2706440	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr18:2706440delA	uc002klm.3	+	15	2224	c.2035delA	c.(2035-2037)AAAfs	p.K679fs	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	679					chromosome organization		ATP binding				0						GAAAGCTGTTAAAAAATATGT	0.353													3	4	---	---	---	---						.
MLL4	9757	broad.mit.edu	37	19	36229305	36229305	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr19:36229305delC	uc010eei.2	+	38	7995	c.7995delC	c.(7993-7995)CACfs	p.H2665fs		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2665	SET.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGGTCATCCACGTGGAGGGCC	0.572													8	16	---	---	---	---						.
TFRC	7037	broad.mit.edu	37	3	195782167	195782168	+	Frame_Shift_Del	DEL	TG	-	-			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr3:195782167_195782168delTG	uc003fvz.3	-	17	1965_1966	c.1682_1683delCA	c.(1681-1683)ACAfs	p.T561fs	TFRC_uc003fwa.3_Frame_Shift_Del_p.T561fs|TFRC_uc010hzy.2_Frame_Shift_Del_p.T480fs|TFRC_uc011btr.1_Frame_Shift_Del_p.T279fs	NM_003234	NP_003225	P02786	TFR1_HUMAN	transferrin receptor	561	Extracellular (Potential).				cellular iron ion homeostasis|endocytosis|interspecies interaction between organisms|proteolysis|transferrin transport|transmembrane transport	coated pit|endosome|integral to plasma membrane|melanosome	peptidase activity|transferrin receptor activity			ovary(3)	3	all_cancers(143;1.94e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.36e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.17e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00233)		AAGGATAATCTGTGTCCTGCAA	0.500			T	BCL6	NHL								21	43	---	---	---	---						.
SLC16A10	117247	broad.mit.edu	37	6	111409136	111409136	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr6:111409136delC	uc003pus.2	+	1	356	c.181delC	c.(181-183)CCCfs	p.P61fs	SLC16A10_uc003pur.3_Frame_Shift_Del_p.P61fs	NM_018593	NP_061063	Q8TF71	MOT10_HUMAN	solute carrier family 16, member 10	61	Extracellular (Potential).				aromatic amino acid transport|cellular nitrogen compound metabolic process|ion transport	basolateral plasma membrane|integral to membrane	amino acid transmembrane transporter activity				0		all_cancers(87;0.00172)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0313)|Colorectal(196;0.0466)		OV - Ovarian serous cystadenocarcinoma(136;0.0703)|Epithelial(106;0.12)|all cancers(137;0.132)		GCCCCATGAGCCCCCCGAACC	0.652													5	11	---	---	---	---						.
EXD3	54932	broad.mit.edu	37	9	140243958	140243958	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-8081-01A-11D-2340-08	TCGA-BR-8081-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	837ee400-9797-4e3f-a7f7-146ad1bde639	71909f3a-4187-4dca-8a94-f4fe08189521	g.chr9:140243958delG	uc004cmp.2	-	15	1716	c.1520delC	c.(1519-1521)CCAfs	p.P507fs	C9orf167_uc011mew.1_Intron|EXD3_uc010ncf.1_Frame_Shift_Del_p.P187fs|EXD3_uc004cmq.1_RNA	NM_017820	NP_060290	Q8N9H8	MUT7_HUMAN	exonuclease 3'-5' domain containing 3	507					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						GTCCACGGCTGGGGCTGGCAC	0.682													7	15	---	---	---	---						.
