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
MTOR	2475	broad.mit.edu	37	1	11184573	11184573	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr1:11184573G>T	uc001asd.2	-	47	6765	c.6644C>A	c.(6643-6645)TCT>TAT	p.S2215Y	MTOR_uc001asc.2_Missense_Mutation_p.S420Y	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	2215	PI3K/PI4K.		S -> Y (in a colorectal adenocarcinoma sample; somatic mutation).		cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity	p.S2215Y(1)		central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TTTCCGAAGAGATGTTGGGTC	0.438000													20	40					6.33239e-15	7.35926e-15	0.055883	1	0
C1orf175	374977	broad.mit.edu	37	1	55118778	55118778	+	Missense_Mutation	SNP	A	C	C			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr1:55118778A>C	uc010ooe.1	+	3	503	c.179A>C	c.(178-180)GAT>GCT	p.D60A	C1orf175_uc001cxq.2_RNA|C1orf175_uc001cxo.2_Missense_Mutation_p.D60A|C1orf175_uc010ooc.1_Intron|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Intron|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc010oog.1_Missense_Mutation_p.D60A|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	60						integral to membrane	binding				0						CTCGTTCCAGATCTTAATGAT	0.567000													40	89					0	0	0.104719	0	0
TRIM33	51592	broad.mit.edu	37	1	114948195	114948195	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr1:114948195G>A	uc001eew.2	-	15	2689	c.2605C>T	c.(2605-2607)CAC>TAC	p.H869Y	TRIM33_uc010owr.1_Missense_Mutation_p.H483Y|TRIM33_uc010ows.1_Missense_Mutation_p.H501Y|TRIM33_uc001eex.2_Missense_Mutation_p.H869Y|TRIM33_uc001eey.1_Missense_Mutation_p.H64Y	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	869					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCCGACCTGTGCATGAGGCTT	0.468000			T	RET	papillary thyroid								59	149					0	0	0.048971	0	0
ZNF488	118738	broad.mit.edu	37	10	48371023	48371023	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr10:48371023G>T	uc001jex.2	+	2	653	c.491G>T	c.(490-492)AGC>ATC	p.S164I	ZNF488_uc001jey.2_Missense_Mutation_p.S57I	NM_153034	NP_694579	Q96MN9	ZN488_HUMAN	zinc finger protein 488	164					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGCGCCTTTAGCAAACCAACC	0.597000													4	72					1.23904e-05	1.33197e-05	0.014758	1	0
C10orf137	26098	broad.mit.edu	37	10	127442312	127442312	+	Missense_Mutation	SNP	A	G	G			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr10:127442312A>G	uc001liq.1	+	24	3736	c.3443A>G	c.(3442-3444)AAT>AGT	p.N1148S	C10orf137_uc001lio.1_Missense_Mutation_p.N1114S|C10orf137_uc001lip.1_Missense_Mutation_p.N852S|C10orf137_uc001lis.1_Missense_Mutation_p.N474S|C10orf137_uc001lit.1_Missense_Mutation_p.N58S	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	1148					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				CCTAGTCTCAATCGAGAAGAA	0.393000													37	70					0	0	0.080422	0	0
SLCO2B1	11309	broad.mit.edu	37	11	74883496	74883496	+	Missense_Mutation	SNP	G	C	C			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr11:74883496G>C	uc001owb.2	+	7	1241	c.854G>C	c.(853-855)GGT>GCT	p.G285A	SLCO2B1_uc010rrq.1_Missense_Mutation_p.G30A|SLCO2B1_uc010rrr.1_Missense_Mutation_p.G141A|SLCO2B1_uc010rrs.1_Missense_Mutation_p.G169A|SLCO2B1_uc001owc.2_Missense_Mutation_p.G58A|SLCO2B1_uc001owd.2_Missense_Mutation_p.G263A	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	285	Helical; Name=6; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	ATCGCTGCCGGTGCAGTGGCC	0.557000													27	65					0	0	0.108266	0	0
ARHGEF12	23365	broad.mit.edu	37	11	120300474	120300474	+	Silent	SNP	C	T	T			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr11:120300474C>T	uc001pxl.1	+	10	724	c.717C>T	c.(715-717)ATC>ATT	p.I239I	ARHGEF12_uc009zat.2_Silent_p.I220I|ARHGEF12_uc010rzn.1_Silent_p.I136I|ARHGEF12_uc009zau.1_Silent_p.I136I	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	239	Potential.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		TAAAAGAGATCCAAGAGGCCA	0.378000			T	MLL	AML								4	83					0	0	0.009096	0	0
GTSF1	121355	broad.mit.edu	37	12	54857070	54857070	+	Silent	SNP	A	G	G			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr12:54857070A>G	uc001sgb.2	-	4	215	c.129T>C	c.(127-129)GAT>GAC	p.D43D		NM_144594	NP_653195	Q8WW33	GTSF1_HUMAN	gametocyte specific factor 1	43							metal ion binding				0		Myeloproliferative disorder(1001;0.00452)				TGCTTGCAACATCAGGATGAT	0.433000													22	55					0	0	0.091800	0	0
MYH6	4624	broad.mit.edu	37	14	23859655	23859655	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr14:23859655C>G	uc001wjv.2	-	26	3410	c.3343G>C	c.(3343-3345)GCA>CCA	p.A1115P	uc010tnn.1_5'Flank|MIR208A_hsa-mir-208a|MI0000251_5'Flank	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1115	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		tcGATGCGTGCCTGGGTCAGA	0.537000													14	24					0	0	0.105934	0	0
COCH	1690	broad.mit.edu	37	14	31353851	31353851	+	Missense_Mutation	SNP	A	C	C			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr14:31353851A>C	uc001wqr.2	+	9	802	c.722A>C	c.(721-723)AAT>ACT	p.N241T	COCH_uc001wqp.2_Missense_Mutation_p.N241T|COCH_uc001wqq.3_Missense_Mutation_p.N241T|uc001wqs.2_RNA|COCH_uc001wqt.1_Missense_Mutation_p.N48T	NM_004086	NP_004077	O43405	COCH_HUMAN	cochlin precursor	241	VWFA 1.				sensory perception of sound	proteinaceous extracellular matrix				pancreas(1)|central_nervous_system(1)|skin(1)	3	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.00645)		AGAGGGGGTAATTCCAATACA	0.358000													15	43					0	0	0.033300	0	0
GOLGA6L5	374650	broad.mit.edu	37	15	85055735	85055735	+	RNA	SNP	C	T	T			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr15:85055735C>T	uc002bkm.2	-	6		c.825G>A				NR_003246				Homo sapiens cDNA FLJ33459 fis, clone BRAMY2000585.												0						CACAGCCTCTCCTCATGTTCA	0.547000													6	14					0	0	0.047766	0	0
ABCC3	8714	broad.mit.edu	37	17	48734448	48734448	+	Silent	SNP	C	T	T	rs139452504	by1000genomes	TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr17:48734448C>T	uc002isl.2	+	4	470	c.390C>T	c.(388-390)GGC>GGT	p.G130G	ABCC3_uc002isk.3_Silent_p.G130G	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	130	Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	GGCTGCAGGGCGTACAGTCTT	0.587000													26	88					0	0	0.091800	0	0
EPX	8288	broad.mit.edu	37	17	56281634	56281634	+	Silent	SNP	G	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr17:56281634G>A	uc002ivq.2	+	12	2084	c.1998G>A	c.(1996-1998)CTG>CTA	p.L666L		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	666					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						GCAAGGCCCTGAGCAGAATTT	0.488000													27	62					0	0	0.045705	0	0
CCDC57	284001	broad.mit.edu	37	17	80129603	80129603	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr17:80129603C>G	uc002kdz.1	-	13	2211	c.1856G>C	c.(1855-1857)AGC>ACC	p.S619T	CCDC57_uc002kdx.1_Missense_Mutation_p.S619T|CCDC57_uc010dik.1_Missense_Mutation_p.S127T	NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	619										ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			GGTGCGGACGCTGGGCTGAGA	0.478000													14	60					0	0	0.020292	0	0
EPB41L3	23136	broad.mit.edu	37	18	5416056	5416056	+	Missense_Mutation	SNP	T	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr18:5416056T>A	uc002kmt.1	-	13	1914	c.1828A>T	c.(1828-1830)AAC>TAC	p.N610Y	EPB41L3_uc010wzh.1_Intron|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Intron|EPB41L3_uc010wzf.1_Intron|EPB41L3_uc010wzg.1_Intron|EPB41L3_uc010dkr.2_Intron	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	610	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TCAGAAAGGTTGGGGAAAGAG	0.532000													34	89					0	0	0.059317	0	0
TMEM205	374882	broad.mit.edu	37	19	11453637	11453637	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr19:11453637G>T	uc002mrb.2	-	4	612	c.424C>A	c.(424-426)CAG>AAG	p.Q142K	TMEM205_uc002mra.2_Missense_Mutation_p.Q142K|TMEM205_uc002mqz.2_Missense_Mutation_p.Q142K|TMEM205_uc002mrc.2_Missense_Mutation_p.Q142K	NM_001145416	NP_001138888	Q6UW68	TM205_HUMAN	transmembrane protein 205	142						integral to membrane					0						TCTCGCAGCTGGCGGTAGGGA	0.627000													42	86					8.01111e-26	9.84222e-26	0.039052	1	0
ISOC2	79763	broad.mit.edu	37	19	55966664	55966664	+	Nonsense_Mutation	SNP	G	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr19:55966664G>A	uc002qlb.2	-	4	556	c.382C>T	c.(382-384)CAG>TAG	p.Q128*	ISOC2_uc002qla.2_Nonsense_Mutation_p.Q144*|ISOC2_uc002qlc.2_Nonsense_Mutation_p.Q58*	NM_001136201	NP_001129673	Q96AB3	ISOC2_HUMAN	isochorismatase domain containing 2 isoform 1	128					protein destabilization	mitochondrion|nucleus	catalytic activity|protein binding			ovary(1)	1	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0535)		ACATGGACCTGCAGCCCCCGG	0.662000													5	19					0	0	0.014758	0	0
DHRS9	10170	broad.mit.edu	37	2	169938176	169938176	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr2:169938176G>A	uc002uep.2	+	5	1589	c.85G>A	c.(85-87)GAT>AAT	p.D29N	DHRS9_uc002ueq.2_Missense_Mutation_p.D29N|DHRS9_uc010zdc.1_Missense_Mutation_p.D89N|DHRS9_uc002uer.1_Missense_Mutation_p.D29N|DHRS9_uc010zdd.1_Missense_Mutation_p.D29N|DHRS9_uc010zde.1_Missense_Mutation_p.D29N	NM_005771	NP_005762	Q9BPW9	DHRS9_HUMAN	NADP-dependent retinol dehydrogenase/reductase	29					9-cis-retinoic acid biosynthetic process|androgen metabolic process|epithelial cell differentiation|progesterone metabolic process|retinol metabolic process	integral to endoplasmic reticulum membrane|microsome	alcohol dehydrogenase (NAD) activity|binding|racemase and epimerase activity|retinol dehydrogenase activity|testosterone dehydrogenase (NAD+) activity				0						AGACATCACTGATAAGTACAT	0.428000													7	107					0	0	0.029380	0	0
PGAP1	80055	broad.mit.edu	37	2	197781305	197781305	+	Missense_Mutation	SNP	C	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr2:197781305C>A	uc002utw.2	-	3	428	c.314G>T	c.(313-315)GGC>GTC	p.G105V	PGAP1_uc002utx.2_5'UTR|PGAP1_uc002uty.1_Missense_Mutation_p.G105V|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_5'UTR	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	105	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						TGCAATGGAGCCAATAGAACG	0.368000													9	35					0.00448238	0.00470103	0.047766	1	0
PTPRT	11122	broad.mit.edu	37	20	41306544	41306544	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr20:41306544G>T	uc002xkg.2	-	7	1299	c.1115C>A	c.(1114-1116)CCG>CAG	p.P372Q	PTPRT_uc010ggj.2_Missense_Mutation_p.P372Q	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	372	Extracellular (Potential).|Fibronectin type-III 1.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				AGGCCCTGGCGGTCCCGTACC	0.542000													37	97					5.04308e-16	6.02368e-16	0.086207	1	0
MYT1	4661	broad.mit.edu	37	20	62851191	62851191	+	Silent	SNP	C	T	T	rs117853857	by1000genomes	TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr20:62851191C>T	uc002yii.2	+	13	2461	c.2097C>T	c.(2095-2097)GAC>GAT	p.D699D	MYT1_uc002yih.2_Silent_p.D401D|MYT1_uc002yij.2_Silent_p.D358D	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	699	Ser-rich.				cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					AGTCTCCCGACGCCTCCCAGC	0.572000													4	14					0	0	0.014758	0	0
ITGA2	3673	broad.mit.edu	37	5	52366069	52366069	+	Silent	SNP	C	G	G	rs142557473		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr5:52366069C>G	uc003joy.2	+	17	2357	c.2214C>G	c.(2212-2214)CCC>CCG	p.P738P	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Silent_p.P662P|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	738	Extracellular (Potential).				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				AGAGTTGCCCCGAGCACATCA	0.398000													25	69					0	0	0.030593	0	0
PCDHAC1	56135	broad.mit.edu	37	5	140307713	140307713	+	Silent	SNP	A	G	G			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr5:140307713A>G	uc003lih.2	+	1	1412	c.1236A>G	c.(1234-1236)CAA>CAG	p.Q412Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Silent_p.Q412Q	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	412	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGAATACCAAGTCCTGATCA	0.517000													19	64					0	0	0.049695	0	0
DOCK2	1794	broad.mit.edu	37	5	169446069	169446069	+	Missense_Mutation	SNP	A	G	G			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr5:169446069A>G	uc003maf.2	+	33	3418	c.3338A>G	c.(3337-3339)GAC>GGC	p.D1113G	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.D605G	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1113	Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATCTTCTTCGACATGATGCTG	0.463000													61	200					0	0	0.048971	0	0
PKD1L1	168507	broad.mit.edu	37	7	47944905	47944905	+	Missense_Mutation	SNP	T	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr7:47944905T>A	uc003tny.1	-	11	1540	c.1540A>T	c.(1540-1542)AAT>TAT	p.N514Y		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	514	Extracellular (Potential).|PKD 1.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						ACAGTTCCATTTGTGTAGACA	0.443000													33	104					0	0	0.050027	0	0
ZKSCAN5	23660	broad.mit.edu	37	7	99129235	99129235	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr7:99129235G>A	uc003uqv.2	+	7	2007	c.1883G>A	c.(1882-1884)AGT>AAT	p.S628N	ZKSCAN5_uc010lfx.2_Missense_Mutation_p.S628N|ZKSCAN5_uc003uqw.2_Missense_Mutation_p.S628N|ZKSCAN5_uc003uqx.2_Missense_Mutation_p.S555N|ZKSCAN5_uc003uqy.2_Missense_Mutation_p.S364N	NM_145102	NP_659570	Q9Y2L8	ZKSC5_HUMAN	zinc finger with KRAB and SCAN domains 5	628					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					AGCGTGCACAGTGGGGAGAGA	0.557000													4	71					0	0	0.014758	0	0
VGF	7425	broad.mit.edu	37	7	100806695	100806695	+	Missense_Mutation	SNP	T	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr7:100806695T>A	uc003uxx.3	-	2	1648	c.1430A>T	c.(1429-1431)GAG>GTG	p.E477V		NM_003378	NP_003369	O15240	VGF_HUMAN	VGF nerve growth factor inducible precursor	477					response to cAMP	extracellular space|transport vesicle	growth factor activity				0	Lung NSC(181;0.168)|all_lung(186;0.215)					CCGCTTCTCCTCCACCTCCTC	0.463000													12	31					0	0	0.020292	0	0
CPA6	57094	broad.mit.edu	37	8	68397000	68397000	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr8:68397000G>A	uc003xxq.3	-	7	917	c.661C>T	c.(661-663)CCA>TCA	p.P221S	CPA6_uc003xxr.3_Missense_Mutation_p.P73S|CPA6_uc003xxs.2_Missense_Mutation_p.P221S	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor	221					proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			CTCATGGCTGGGTCACTCTTA	0.353000													19	51					0	0	0.049695	0	0
Unknown	0	broad.mit.edu	37	9	68413569	68413569	+	RNA	SNP	C	T	T			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr9:68413569C>T	uc004aex.2	+	1		c.124C>T								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		CCCCCAGTGGCGCCGGATCTA	0.557000													2	1					0	0	0.004672	0	0
MBNL3	55796	broad.mit.edu	37	X	131540269	131540269	+	Missense_Mutation	SNP	T	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chrX:131540269T>A	uc004ewv.3	-	2	408	c.329A>T	c.(328-330)CAA>CTA	p.Q110L	uc004ewr.1_Intron|MBNL3_uc004eww.2_Missense_Mutation_p.Q14L|MBNL3_uc010nrl.1_RNA|MBNL3_uc004ews.2_Missense_Mutation_p.Q14L|MBNL3_uc004ewt.2_Missense_Mutation_p.Q60L|MBNL3_uc011muz.1_Missense_Mutation_p.Q14L|MBNL3_uc004ewu.3_Missense_Mutation_p.Q110L|MBNL3_uc004ewx.1_Missense_Mutation_p.Q60L	NM_018388	NP_060858	Q9NUK0	MBNL3_HUMAN	muscleblind-like 3 isoform G	110					mRNA processing|multicellular organismal development|regulation of RNA splicing|RNA splicing	Golgi apparatus|nucleus	nucleic acid binding|zinc ion binding				0	Acute lymphoblastic leukemia(192;0.000127)					TGATGACATTTGAGCGTTTTG	0.453000													50	106					0	0	0.048971	0	0
SLC6A8	6535	broad.mit.edu	37	X	152960547	152960547	+	Nonsense_Mutation	SNP	C	T	T			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chrX:152960547C>T	uc004fib.3	+	13	2064	c.1786C>T	c.(1786-1788)CAG>TAG	p.Q596*	SLC6A8_uc004fic.3_Nonsense_Mutation_p.Q586*|SLC6A8_uc011myx.1_Nonsense_Mutation_p.Q481*|SLC6A8_uc010nuj.2_RNA	NM_005629	NP_005620	P48029	SC6A8_HUMAN	solute carrier family 6 member 8 isoform 1	596	Cytoplasmic (Potential).				creatine metabolic process|muscle contraction	integral to plasma membrane	creatine:sodium symporter activity|neurotransmitter:sodium symporter activity			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Creatine(DB00148)	GCACCTGACCCAGCCCATCTG	0.652000													3	15					0	0	0.004672	0	0
ATP6AP1	537	broad.mit.edu	37	X	153657422	153657422	+	Missense_Mutation	SNP	C	A	A			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chrX:153657422C>A	uc004flf.1	+	2	251	c.190C>A	c.(190-192)CAT>AAT	p.H64N	uc004fld.3_5'Flank|uc004fle.3_5'Flank|ATP6AP1_uc004flg.1_RNA|ATP6AP1_uc004flh.1_Missense_Mutation_p.H24N	NM_001183	NP_001174	Q15904	VAS1_HUMAN	ATPase, H+ transporting, lysosomal accessory	64					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain|vacuolar membrane	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(3)|breast(1)	4	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGCCGACACTCATGAAGGCCA	0.617000													29	85					3.1745e-13	3.59219e-13	0.037714	1	0
KRT3	3850	broad.mit.edu	37	12	53189414	53189431	+	In_Frame_Del	DEL	CCAAAGCCACCAGCCCCT	-	-	rs142692092	by1000genomes	TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr12:53189414_53189431delCCAAAGCCACCAGCCCCT	uc001say.2	-	1	462_479	c.396_413delAGGGGCTGGTGGCTTTGG	c.(394-414)GGAGGGGCTGGTGGCTTTGGT>GGT	p.132_138GGAGGFG>G		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	132_138	Gly-rich.|Head.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						accaggaccaccaaagccaccagcccctccaaagccac	0.183													4	7	---	---	---	---					
MAP3K9	4293	broad.mit.edu	37	14	71275774	71275776	+	In_Frame_Del	DEL	CCT	-	-	rs3832971		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr14:71275774_71275776delCCT	uc001xmm.2	-	1	113_115	c.113_115delAGG	c.(112-117)GAGGCG>GCG	p.E38del	MAP3K9_uc001xml.2_In_Frame_Del_p.E38del	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	38	Ala-rich.|Poly-Glu.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		GCCGCCGCCGcctcctcctcctc	0.680													3	4	---	---	---	---					
TUBGCP5	114791	broad.mit.edu	37	15	22872435	22872444	+	Frame_Shift_Del	DEL	AAACTGCCAT	-	-			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr15:22872435_22872444delAAACTGCCAT	uc001yur.3	+	22	3094_3103	c.2964_2973delAAACTGCCAT	c.(2962-2973)AAAAACTGCCATfs	p.K988fs	TUBGCP5_uc001yuq.2_Frame_Shift_Del_p.K988fs	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	988_991					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		CTGATTTTAAAAACTGCCATATGTTTCTTG	0.324													9	112	---	---	---	---					
SPAG9	9043	broad.mit.edu	37	17	49063070	49063071	+	Frame_Shift_Del	DEL	AA	-	-			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr17:49063070_49063071delAA	uc002itc.2	-	23	3217_3218	c.3008_3009delTT	c.(3007-3009)ATTfs	p.I1003fs	SPAG9_uc002itb.2_Frame_Shift_Del_p.I989fs|SPAG9_uc002itd.2_Frame_Shift_Del_p.I993fs|SPAG9_uc002ita.2_Frame_Shift_Del_p.I846fs	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	1003					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			CAATACTGAGAATCGAATCTTT	0.322													8	28	---	---	---	---					
APOB	338	broad.mit.edu	37	2	21224920	21224921	+	Frame_Shift_Ins	INS	-	G	G			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr2:21224920_21224921insG	uc002red.2	-	29	13501_13502	c.13373_13374insC	c.(13372-13374)CCAfs	p.P4458fs		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4458					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CTTTTCCATCTGGATCGGTAAG	0.396													33	80	---	---	---	---					
EIF4G1	1981	broad.mit.edu	37	3	184039744	184039746	+	In_Frame_Del	DEL	GAA	-	-			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr3:184039744_184039746delGAA	uc003fnp.2	+	10	1570_1572	c.1372_1374delGAA	c.(1372-1374)GAAdel	p.E465del	EIF4G1_uc003fno.1_In_Frame_Del_p.E406del|EIF4G1_uc010hxw.1_In_Frame_Del_p.E301del|EIF4G1_uc003fnt.2_In_Frame_Del_p.E176del|EIF4G1_uc003fnq.2_In_Frame_Del_p.E378del|EIF4G1_uc003fnr.2_In_Frame_Del_p.E301del|EIF4G1_uc010hxx.2_In_Frame_Del_p.E472del|EIF4G1_uc003fns.2_In_Frame_Del_p.E425del|EIF4G1_uc010hxy.2_In_Frame_Del_p.E472del|EIF4G1_uc003fnv.3_In_Frame_Del_p.E465del|EIF4G1_uc003fnu.3_In_Frame_Del_p.E465del|EIF4G1_uc003fnw.2_In_Frame_Del_p.E472del|EIF4G1_uc003fnx.2_In_Frame_Del_p.E269del|EIF4G1_uc003fny.3_In_Frame_Del_p.E269del	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	465	Poly-Glu.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GGAGGAAATGgaagaagaagaag	0.443													9	140	---	---	---	---					
POLR2B	5431	broad.mit.edu	37	4	57888371	57888373	+	In_Frame_Del	DEL	AAG	-	-			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr4:57888371_57888373delAAG	uc003hcl.1	+	18	2517_2519	c.2474_2476delAAG	c.(2473-2478)CAAGAA>CAA	p.E827del	POLR2B_uc011cae.1_In_Frame_Del_p.E820del|POLR2B_uc011caf.1_In_Frame_Del_p.E752del|POLR2B_uc003hcm.1_In_Frame_Del_p.E320del	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	827					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					GGATTTGATCAAGAAGAAGTTTT	0.340													13	68	---	---	---	---					
CMYA5	202333	broad.mit.edu	37	5	79034426	79034426	+	Frame_Shift_Del	DEL	G	-	-			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr5:79034426delG	uc003kgc.2	+	2	9910	c.9838delG	c.(9838-9840)GGGfs	p.G3280fs		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3280						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AGCTGCAGAAGGGGAAATTTG	0.453													25	120	---	---	---	---					
HCG4	54435	broad.mit.edu	37	6	29760353	29760373	+	RNA	DEL	GCGGGCGCCGTGGATGGAGCA	-	-	rs146714150		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr6:29760353_29760373delGCGGGCGCCGTGGATGGAGCA	uc003nns.2	-	1		c.478_498delTGCTCCATCCACGGCGCCCGC			uc010jrm.1_In_Frame_Del_p.AGAVDGA111del|uc003nnt.2_In_Frame_Del_p.RAPWMEQ147del|uc011dma.1_5'Flank	NR_002139				Homo sapiens clone HCG IV.9 unknown mRNA.												0						GGATGGAGCCGCGGGCGCCGTGGATGGAGCAGGAGGGGCCG	0.674													3	5	---	---	---	---					
SSPO	23145	broad.mit.edu	37	7	149512845	149512846	+	Frame_Shift_Ins	INS	-	AGGTGGTC	AGGTGGTC	rs146626309	by1000genomes	TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chr7:149512845_149512846insAGGTGGTC	uc010lpk.2	+	77	10852_10853	c.10852_10853insAGGTGGTC	c.(10852-10854)GAGfs	p.E3618fs		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3618					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GGAACCCGGAGAGGTGGTCACT	0.653													3	5	---	---	---	---					
RGAG1	57529	broad.mit.edu	37	X	109695056	109695056	+	Frame_Shift_Del	DEL	G	-	-			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chrX:109695056delG	uc004eor.1	+	3	1457	c.1211delG	c.(1210-1212)AGAfs	p.R404fs	RGAG1_uc011msr.1_Frame_Shift_Del_p.R404fs	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	404										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						CCACCAGTAAGAGCTTTAGAT	0.502													185	480	---	---	---	---					
ZNF185	7739	broad.mit.edu	37	X	152087570	152087572	+	In_Frame_Del	DEL	GAG	-	-			TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	g.chrX:152087570_152087572delGAG	uc010ntv.1	+	7	512_514	c.475_477delGAG	c.(475-477)GAGdel	p.E165del	ZNF185_uc011myg.1_In_Frame_Del_p.E165del|ZNF185_uc011myh.1_In_Frame_Del_p.E165del|ZNF185_uc011myi.1_In_Frame_Del_p.E165del|ZNF185_uc011myj.1_In_Frame_Del_p.E165del|ZNF185_uc011myk.1_In_Frame_Del_p.E165del|ZNF185_uc004fgw.3_In_Frame_Del_p.E30del|ZNF185_uc004fgu.2_5'UTR|ZNF185_uc004fgv.2_5'Flank	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	165	Poly-Glu.					cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AGGGGACACCgaggaggaggagg	0.522													7	50	---	---	---	---					
