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	filter
TARDBP	23435	broad.mit.edu	37	1	11077007	11077007	+	Silent	SNP	A	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:11077007A>C	uc001art.2	+	3	479	c.345A>C	c.(343-345)ACA>ACC	p.T115T	TARDBP_uc010oap.1_Intron	NM_007375	NP_031401	Q13148	TADBP_HUMAN	TAR DNA binding protein	115	RRM 1.			Missing: Completely abolishes RNA binding.	3'-UTR-mediated mRNA stabilization|cell death|mRNA processing|negative regulation by host of viral transcription|RNA splicing|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0578)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.37e-07)|COAD - Colon adenocarcinoma(227;7.38e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000299)|Kidney(185;0.000754)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)		CATGGAAAACAACCGAACAGG	0.388													14	67	---	---	---	---	PASS
MTOR	2475	broad.mit.edu	37	1	11307700	11307700	+	Nonsense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:11307700G>A	uc001asd.2	-	8	1328	c.1207C>T	c.(1207-1209)CGA>TGA	p.R403*		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	403					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GCAGAAGGTCGGAATGCAGCC	0.478													17	48	---	---	---	---	PASS
PRAMEF12	390999	broad.mit.edu	37	1	12837350	12837350	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:12837350G>T	uc001aui.2	+	3	1087	c.1060G>T	c.(1060-1062)GAC>TAC	p.D354Y		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	354	LRR 2.									ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GCAGACCCTGGACTTAGAGGA	0.592													25	92	---	---	---	---	PASS
ZBTB8A	653121	broad.mit.edu	37	1	33059073	33059073	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:33059073A>G	uc001bvn.2	+	3	1026	c.541A>G	c.(541-543)AAT>GAT	p.N181D	ZBTB8A_uc001bvk.2_RNA|ZBTB8A_uc001bvm.2_Missense_Mutation_p.N181D	NM_001040441	NP_001035531	Q96BR9	ZBT8A_HUMAN	zinc finger and BTB domain containing 8A	181					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAAATCTTGGAATAAGTATAA	0.418													15	47	---	---	---	---	PASS
LHX8	431707	broad.mit.edu	37	1	75609574	75609574	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:75609574G>C	uc001dgo.2	+	7	1319	c.655G>C	c.(655-657)GTT>CTT	p.V219L	LHX8_uc001dgq.2_Missense_Mutation_p.V158L	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	219						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						AGAGCAAGATGTTAACCATCC	0.413													13	53	---	---	---	---	PASS
ZZZ3	26009	broad.mit.edu	37	1	78031388	78031388	+	Silent	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:78031388G>A	uc001dhq.2	-	15	3125	c.2649C>T	c.(2647-2649)TAC>TAT	p.Y883Y	ZZZ3_uc001dhr.2_Silent_p.Y389Y|ZZZ3_uc001dhp.2_Silent_p.Y882Y	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	883					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						GAGACACACAGTAGTCTCTGT	0.378													11	38	---	---	---	---	PASS
PTGFR	5737	broad.mit.edu	37	1	79002271	79002271	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:79002271G>T	uc001din.2	+	3	1245	c.979G>T	c.(979-981)GTC>TTC	p.V327F	PTGFR_uc001dim.2_3'UTR	NM_000959	NP_000950	P43088	PF2R_HUMAN	prostaglandin F receptor isoform a precursor	327	Cytoplasmic (Potential).				parturition	extracellular region|integral to plasma membrane	prostaglandin F receptor activity			ovary(3)|breast(2)|skin(1)	6				Colorectal(170;0.248)	Bimatoprost(DB00905)|Latanoprost(DB00654)|Travoprost(DB00287)	TGGAGTGCATGTCATCAGCTT	0.393													12	57	---	---	---	---	PASS
AMY2B	280	broad.mit.edu	37	1	104116399	104116399	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:104116399G>T	uc001duq.2	+	6	1199	c.583G>T	c.(583-585)GCC>TCC	p.A195S	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.A195S|AMY2B_uc001dus.1_5'Flank	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	195					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		TTCCAAGATTGCCGAATATAT	0.413													39	233	---	---	---	---	PASS
PDE4DIP	9659	broad.mit.edu	37	1	144882752	144882752	+	Silent	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:144882752G>A	uc001elw.3	-	24	3558	c.3267C>T	c.(3265-3267)ACC>ACT	p.T1089T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Intron|PDE4DIP_uc001elv.3_Silent_p.T96T	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1089					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GACCCTCTTTGGTTACCACAG	0.493			T	PDGFRB	MPD								28	235	---	---	---	---	PASS
LCE1B	353132	broad.mit.edu	37	1	152785226	152785226	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:152785226G>T	uc001faq.2	+	1	780	c.304G>T	c.(304-306)GGC>TGC	p.G102C		NM_178349	NP_848126	Q5T7P3	LCE1B_HUMAN	late cornified envelope 1B	102	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)			GCCCTCCGGGGGCTCCAGCTG	0.622													11	27	---	---	---	---	PASS
INSRR	3645	broad.mit.edu	37	1	156814587	156814587	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:156814587T>C	uc010pht.1	-	13	2740	c.2486A>G	c.(2485-2487)AAG>AGG	p.K829R	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	829	Fibronectin type-III 3.|Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GACACTGTTCTTGCTGGAGGC	0.592													11	38	---	---	---	---	PASS
FCRL5	83416	broad.mit.edu	37	1	157514242	157514242	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:157514242C>G	uc001fqu.2	-	5	812	c.654G>C	c.(652-654)GAG>GAC	p.E218D	FCRL5_uc009wsm.2_Missense_Mutation_p.E218D|FCRL5_uc010phv.1_Missense_Mutation_p.E218D|FCRL5_uc010phw.1_Missense_Mutation_p.E133D|FCRL5_uc001fqv.1_Missense_Mutation_p.E218D|FCRL5_uc010phx.1_5'UTR	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	218	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				CATCTGACCTCTCTAGAGAGA	0.567													28	109	---	---	---	---	PASS
FCRL5	83416	broad.mit.edu	37	1	157514827	157514827	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:157514827G>T	uc001fqu.2	-	4	511	c.353C>A	c.(352-354)TCT>TAT	p.S118Y	FCRL5_uc009wsm.2_Missense_Mutation_p.S118Y|FCRL5_uc010phv.1_Missense_Mutation_p.S118Y|FCRL5_uc010phw.1_Missense_Mutation_p.S33Y|FCRL5_uc001fqv.1_Missense_Mutation_p.S118Y|FCRL5_uc010phx.1_Translation_Start_Site	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	118	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				CAGAACCACAGAGTCTCCTTC	0.408													14	45	---	---	---	---	PASS
CD1C	911	broad.mit.edu	37	1	158262495	158262495	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:158262495G>T	uc001fru.2	+	4	1012	c.720G>T	c.(718-720)ATG>ATT	p.M240I	CD1C_uc001frv.2_Missense_Mutation_p.M43I	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor	240	Extracellular (Potential).|Ig-like.				antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					TGACATGGATGCGGAATGAAC	0.542													10	78	---	---	---	---	PASS
CD1B	910	broad.mit.edu	37	1	158299801	158299801	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:158299801C>T	uc001frx.2	-	3	556	c.448G>A	c.(448-450)GTG>ATG	p.V150M	CD1B_uc001frw.2_Missense_Mutation_p.V43M	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	150	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					GGGGAAGGCACACATGAAGCA	0.468													44	169	---	---	---	---	PASS
SPTA1	6708	broad.mit.edu	37	1	158651411	158651411	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:158651411A>G	uc001fst.1	-	4	636	c.437T>C	c.(436-438)CTG>CCG	p.L146P		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	146	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)					CTCCAGGGTCAGCTCTAACAG	0.547													22	89	---	---	---	---	PASS
MNDA	4332	broad.mit.edu	37	1	158815386	158815386	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:158815386A>C	uc001fsz.1	+	5	780	c.580A>C	c.(580-582)ACC>CCC	p.T194P		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	194					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					GAATCAGGAAACCCAGGCCCA	0.363													7	22	---	---	---	---	PASS
ATP1A2	477	broad.mit.edu	37	1	160098516	160098516	+	Silent	SNP	G	T	T	rs55741021		TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:160098516G>T	uc001fvc.2	+	9	1224	c.1092G>T	c.(1090-1092)ACG>ACT	p.T364T	ATP1A2_uc001fvb.2_Silent_p.T364T|ATP1A2_uc010piz.1_Silent_p.T209T|ATP1A2_uc001fvd.2_Silent_p.T100T|ATP1A2_uc009wtg.1_Silent_p.T52T	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	364	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CGGTGGAGACGCTGGGCTCCA	0.582													18	71	---	---	---	---	PASS
TNR	7143	broad.mit.edu	37	1	175325455	175325455	+	Missense_Mutation	SNP	G	C	C	rs146606650		TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:175325455G>C	uc001gkp.1	-	14	3199	c.3118C>G	c.(3118-3120)CTC>GTC	p.L1040V	TNR_uc009wwu.1_Missense_Mutation_p.L1040V	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1040	Fibronectin type-III 9.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ATGTACTCACGAGTAGAAAAG	0.493													20	86	---	---	---	---	PASS
TNR	7143	broad.mit.edu	37	1	175372396	175372396	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:175372396C>A	uc001gkp.1	-	2	937	c.856G>T	c.(856-858)GGC>TGC	p.G286C	TNR_uc009wwu.1_Missense_Mutation_p.G286C|TNR_uc010pmz.1_Missense_Mutation_p.G286C	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	286	Cys-rich.|EGF-like 4.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CCAACGTAGCCCTCCTCGCAT	0.612													12	44	---	---	---	---	PASS
CEP350	9857	broad.mit.edu	37	1	180044231	180044231	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:180044231G>C	uc001gnt.2	+	28	6025	c.5642G>C	c.(5641-5643)CGT>CCT	p.R1881P	CEP350_uc009wxl.2_Missense_Mutation_p.R1880P|CEP350_uc001gnv.2_Missense_Mutation_p.R16P	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1881	Potential.					centrosome|nucleus|spindle				ovary(4)	4						TGGAAGCGACGTTTAGATGCA	0.428													15	42	---	---	---	---	PASS
CRB1	23418	broad.mit.edu	37	1	197316598	197316598	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:197316598A>C	uc001gtz.2	+	4	1112	c.977A>C	c.(976-978)CAC>CCC	p.H326P	CRB1_uc010poz.1_Missense_Mutation_p.H257P|CRB1_uc001gty.1_Missense_Mutation_p.H326P|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Intron|CRB1_uc010ppb.1_Missense_Mutation_p.H326P|CRB1_uc010ppc.1_RNA	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	326	Extracellular (Potential).|EGF-like 8.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TACACTTGTCACTGCTGGCCT	0.373													13	40	---	---	---	---	PASS
NFASC	23114	broad.mit.edu	37	1	204951142	204951142	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:204951142G>T	uc001hbj.2	+	21	2792	c.2464G>T	c.(2464-2466)GAA>TAA	p.E822*	NFASC_uc010pra.1_Nonsense_Mutation_p.E818*|NFASC_uc001hbi.2_Nonsense_Mutation_p.E818*|NFASC_uc010prb.1_Nonsense_Mutation_p.E833*|NFASC_uc010prc.1_Nonsense_Mutation_p.E389*|NFASC_uc001hbk.1_Nonsense_Mutation_p.E628*|NFASC_uc001hbl.1_Nonsense_Mutation_p.E72*	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	822	Extracellular (Potential).				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			TTACTCCGGAGAAGATTGTGA	0.612													5	12	---	---	---	---	PASS
PCNXL2	80003	broad.mit.edu	37	1	233134126	233134126	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:233134126C>G	uc001hvl.2	-	32	5897	c.5662G>C	c.(5662-5664)GGA>CGA	p.G1888R	PCNXL2_uc001hvk.1_Missense_Mutation_p.G540R|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1888						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GCCCCTCCTCCGTCCACGTCT	0.617													8	22	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237604759	237604759	+	Silent	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:237604759G>A	uc001hyl.1	+	13	1266	c.1146G>A	c.(1144-1146)GTG>GTA	p.V382V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	382	Cytoplasmic (By similarity).|MIR 5.				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)			TGAAATCCGTGAGAATGGGAT	0.348													16	83	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237778056	237778056	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:237778056A>T	uc001hyl.1	+	37	5748	c.5628A>T	c.(5626-5628)CAA>CAT	p.Q1876H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1876	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)			CAAAGCTGCAAGGAGCTGGTG	0.532													8	41	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237817703	237817703	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:237817703C>T	uc001hyl.1	+	52	8074	c.7954C>T	c.(7954-7956)CTG>TTG	p.L2652L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2652	Modulator (Potential).|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)			TTTTGATGCCCTGTCTCAAAA	0.383													6	28	---	---	---	---	PASS
OR2L2	26246	broad.mit.edu	37	1	248201806	248201806	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:248201806G>C	uc001idw.2	+	1	333	c.237G>C	c.(235-237)AAG>AAC	p.K79N	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	79	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TTGTTCCAAAGAtggtttatg	0.299													32	157	---	---	---	---	PASS
SH3BP5L	80851	broad.mit.edu	37	1	249106437	249106437	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr1:249106437G>A	uc001iew.1	-	7	1396	c.844C>T	c.(844-846)CAC>TAC	p.H282Y	SH3BP5L_uc010pzp.1_Missense_Mutation_p.H175Y|SH3BP5L_uc010pzq.1_Missense_Mutation_p.H250Y|SH3BP5L_uc001iev.1_Missense_Mutation_p.H163Y	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	282											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)			CCCAGGGGGTGGGGAGGCAGA	0.716													4	15	---	---	---	---	PASS
TPO	7173	broad.mit.edu	37	2	1544431	1544431	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:1544431G>A	uc002qww.2	+	16	2775	c.2684G>A	c.(2683-2685)AGA>AAA	p.R895K	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Missense_Mutation_p.R838K|TPO_uc002qwr.2_Missense_Mutation_p.R895K|TPO_uc002qwx.2_Missense_Mutation_p.R838K|TPO_uc010yio.1_Missense_Mutation_p.R722K|TPO_uc010yip.1_Missense_Mutation_p.R851K|TPO_uc002qwy.1_Missense_Mutation_p.R191K|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	895	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CCCGAGCTGAGATGCGGAAAG	0.637													13	49	---	---	---	---	PASS
GREB1	9687	broad.mit.edu	37	2	11696853	11696853	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:11696853C>T	uc002rbk.1	+	2	413	c.113C>T	c.(112-114)TCC>TTC	p.S38F	GREB1_uc002rbl.2_Missense_Mutation_p.S38F|GREB1_uc002rbm.2_Intron|GREB1_uc002rbn.1_Missense_Mutation_p.S38F	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	38						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)		CCCATCTTTTCCCAGCTGTAC	0.522													5	38	---	---	---	---	PASS
SFRS7	6432	broad.mit.edu	37	2	38975742	38975742	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:38975742C>T	uc002rqz.2	-	4	678	c.440G>A	c.(439-441)CGC>CAC	p.R147H	SFRS7_uc002rra.2_RNA|SFRS7_uc010ynp.1_Missense_Mutation_p.R147H|GEMIN6_uc002rrb.2_5'Flank	NM_001031684	NP_001026854	Q16629	SRSF7_HUMAN	splicing factor, arginine/serine-rich 7	147	Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding|zinc ion binding				0		all_hematologic(82;0.248)				GCTCCTGCTGCGTGAGCGAGA	0.398													12	59	---	---	---	---	PASS
C2orf86	51057	broad.mit.edu	37	2	63486509	63486509	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:63486509C>A	uc002sch.2	-	14	2294	c.1848G>T	c.(1846-1848)TTG>TTT	p.L616F	C2orf86_uc002sce.2_Intron|C2orf86_uc002scf.2_Missense_Mutation_p.L457F|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Missense_Mutation_p.L424F	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	616					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						CAGCTAGTGCCAATTCACCTT	0.358													11	48	---	---	---	---	PASS
C2orf78	388960	broad.mit.edu	37	2	74043036	74043036	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:74043036C>T	uc002sjr.1	+	3	1807	c.1686C>T	c.(1684-1686)ATC>ATT	p.I562I		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	562	Lys-rich.									ovary(2)	2						CCAGCAGGATCAGCAAAACTA	0.473													9	40	---	---	---	---	PASS
CD8A	925	broad.mit.edu	37	2	87017523	87017523	+	Missense_Mutation	SNP	C	A	A	rs121918660		TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:87017523C>A	uc002srt.2	-	2	1220	c.331G>T	c.(331-333)GGC>TGC	p.G111C	RMND5A_uc002srs.3_Intron|CD8A_uc002srv.2_Missense_Mutation_p.G111C|CD8A_uc010ytn.1_Missense_Mutation_p.G152C|CD8A_uc002sru.2_Missense_Mutation_p.G111C	NM_001768	NP_001759	P01732	CD8A_HUMAN	CD8 antigen alpha polypeptide isoform 1	111	Ig-like V-type.|Extracellular (Potential).		G -> S (in CD8 deficiency; prevents CD8 expression).	G->R: Prevents CD8 expression.	antigen processing and presentation|regulation of immune response|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			ovary(1)	1						AAATAGTAGCCCTCGTTCTCT	0.652													12	50	---	---	---	---	PASS
LIMS1	3987	broad.mit.edu	37	2	109276214	109276214	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:109276214C>T	uc002teg.2	+	2	269	c.150C>T	c.(148-150)TTC>TTT	p.F50F	LIMS1_uc002tef.2_Silent_p.F62F|LIMS1_uc002teh.2_Silent_p.F50F|LIMS1_uc002tei.2_Silent_p.F50F|LIMS1_uc002tej.2_Silent_p.F87F|LIMS1_uc002tek.3_Silent_p.F112F	NM_004987	NP_004978	P48059	LIMS1_HUMAN	LIM and senescent cell antigen-like domains 1	50	LIM zinc-binding 1.				cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0						AAGGACTCTTCTATGAGGTGA	0.552													12	69	---	---	---	---	PASS
DPP10	57628	broad.mit.edu	37	2	116548748	116548748	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:116548748C>T	uc002tla.1	+	18	2080	c.1623C>T	c.(1621-1623)GAC>GAT	p.D541D	DPP10_uc002tlb.1_Silent_p.D491D|DPP10_uc002tlc.1_Silent_p.D537D|DPP10_uc002tle.2_Silent_p.D545D|DPP10_uc002tlf.1_Silent_p.D534D	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	541	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TTCATATTGACGACTATGGTA	0.328													5	47	---	---	---	---	PASS
WDR33	55339	broad.mit.edu	37	2	128522490	128522490	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:128522490C>A	uc002tpg.1	-	6	721	c.538G>T	c.(538-540)GAC>TAC	p.D180Y	WDR33_uc002tph.1_Missense_Mutation_p.D180Y|WDR33_uc002tpi.1_Missense_Mutation_p.D180Y	NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	180	WD 2.				postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		CCTCCGTGGTCTGCTGTCAAC	0.468													8	45	---	---	---	---	PASS
ARHGAP15	55843	broad.mit.edu	37	2	144194488	144194488	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:144194488G>T	uc002tvm.3	+	8	731	c.580G>T	c.(580-582)GAT>TAT	p.D194Y	ARHGAP15_uc010zbl.1_Missense_Mutation_p.D194Y|ARHGAP15_uc002tvn.2_5'UTR	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	194					regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		CCAGCCAAAGGATTCAAGTTG	0.333													9	33	---	---	---	---	PASS
CACNB4	785	broad.mit.edu	37	2	152732997	152732997	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:152732997A>G	uc002tya.2	-	5	532	c.464T>C	c.(463-465)CTC>CCC	p.L155P	CACNB4_uc002txy.2_Missense_Mutation_p.L121P|CACNB4_uc002txz.2_Missense_Mutation_p.L137P|CACNB4_uc010fnz.2_Missense_Mutation_p.L155P|CACNB4_uc002tyb.2_Missense_Mutation_p.L121P	NM_000726	NP_000717	O00305	CACB4_HUMAN	calcium channel, voltage-dependent, beta 4	155					axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)	CTCCAATCTGAGTGGACTTGG	0.398													10	31	---	---	---	---	PASS
SCN7A	6332	broad.mit.edu	37	2	167330361	167330361	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:167330361C>T	uc002udu.1	-	4	518	c.391G>A	c.(391-393)GAT>AAT	p.D131N	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	131	Helical; Name=S1 of repeat I; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						AATACGCAATCAATCAGGACA	0.219													8	30	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179616205	179616205	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:179616205G>A	uc002unb.2	-	46	11146	c.10922C>T	c.(10921-10923)CCC>CTC	p.P3641L	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTGTTAAAGGGAGAGCCAGT	0.373													19	80	---	---	---	---	PASS
PARD3B	117583	broad.mit.edu	37	2	206480475	206480475	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:206480475G>C	uc002var.1	+	23	3763	c.3556G>C	c.(3556-3558)GAC>CAC	p.D1186H	PARD3B_uc002vao.1_Missense_Mutation_p.D1085H|PARD3B_uc002vap.1_Missense_Mutation_p.D1124H|PARD3B_uc002vaq.1_Missense_Mutation_p.D1117H|uc010fuc.1_5'Flank	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	1186					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)		GGGCAGCCCAGACCAGTACCC	0.617													11	49	---	---	---	---	PASS
IKZF2	22807	broad.mit.edu	37	2	213886856	213886856	+	Splice_Site	SNP	T	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:213886856T>A	uc002vem.2	-	6	744	c.575_splice	c.e6-1	p.V192_splice	IKZF2_uc010fuu.2_Splice_Site_p.M47_splice|IKZF2_uc002vej.2_Splice_Site_p.V139_splice|IKZF2_uc002vek.2_Splice_Site|IKZF2_uc010fuv.2_Splice_Site_p.V166_splice|IKZF2_uc002vel.2_Splice_Site_p.V113_splice|IKZF2_uc010fuw.2_Splice_Site|IKZF2_uc010fux.2_Splice_Site|IKZF2_uc010fuy.2_Intron|IKZF2_uc002ven.2_Splice_Site_p.V166_splice	NM_016260	NP_057344	Q9UKS7	IKZF2_HUMAN	helios isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		GTTTACCCACTGTGAAGAGAA	0.443													11	44	---	---	---	---	PASS
ATIC	471	broad.mit.edu	37	2	216190789	216190789	+	Silent	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:216190789G>C	uc002vex.3	+	6	633	c.459G>C	c.(457-459)GTG>GTC	p.V153V	ATIC_uc010zjo.1_Silent_p.V94V|ATIC_uc002vey.3_Silent_p.V152V	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	153					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity		ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	ACTATGTGGTGGTGTCCACGG	0.493			T	ALK	ALCL								6	43	---	---	---	---	PASS
FAM124B	79843	broad.mit.edu	37	2	225266389	225266389	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:225266389C>G	uc002vnx.2	-	1	323	c.97G>C	c.(97-99)GAT>CAT	p.D33H	FAM124B_uc002vnw.2_Missense_Mutation_p.D33H	NM_001122779	NP_001116251	Q9H5Z6	F124B_HUMAN	hypothetical protein LOC79843 isoform a	33							protein binding			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)		CAAATGCAATCCAGGAGCTGG	0.572													12	41	---	---	---	---	PASS
UGT1A4	54657	broad.mit.edu	37	2	234628211	234628211	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:234628211G>T	uc002vux.2	+	1	774	c.745G>T	c.(745-747)GTC>TTC	p.V249F	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Missense_Mutation_p.V249F	NM_007120	NP_009051	P22310	UD14_HUMAN	UDP glycosyltransferase 1 family, polypeptide A4	249					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00266)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0456)|Lung SC(224;0.128)		Epithelial(121;3.49e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000504)|Lung(119;0.0026)|LUSC - Lung squamous cell carcinoma(224;0.00624)	Imipramine(DB00458)|Lamotrigine(DB00555)|Paricalcitol(DB00910)|Trifluoperazine(DB00831)	GGTGGATCTTGTCAGCTATGC	0.527													32	121	---	---	---	---	PASS
OR6B2	389090	broad.mit.edu	37	2	240968955	240968955	+	Nonsense_Mutation	SNP	T	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:240968955T>A	uc002vyr.2	-	2	938	c.892A>T	c.(892-894)AAG>TAG	p.K298*	OR6B2_uc010zoc.1_Nonsense_Mutation_p.K298*	NM_001005853	NP_001005853	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.4e-29)|all cancers(36;2.08e-27)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)		AAGGCGTCCTTAAATTCCTTG	0.418													16	97	---	---	---	---	PASS
MTERFD2	130916	broad.mit.edu	37	2	242039030	242039030	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:242039030C>G	uc002wan.1	-	1	881	c.388G>C	c.(388-390)GAC>CAC	p.D130H	MTERFD2_uc010zoj.1_Intron|MTERFD2_uc010zok.1_Missense_Mutation_p.D101H	NM_182501	NP_872307	Q7Z6M4	MTER2_HUMAN	MTERF domain containing 2	101										ovary(1)	1		all_cancers(19;4.67e-31)|all_epithelial(40;8.67e-13)|Breast(86;0.000141)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;2.47e-32)|all cancers(36;1.79e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-14)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;2.81e-06)|Lung(119;0.000509)|LUSC - Lung squamous cell carcinoma(224;0.00442)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0886)		AAACCCATGTCCAGGAGGGAA	0.488													24	99	---	---	---	---	PASS
PASK	23178	broad.mit.edu	37	2	242054777	242054777	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr2:242054777C>A	uc002wao.1	-	13	3216	c.3124G>T	c.(3124-3126)GAG>TAG	p.E1042*	PASK_uc010zol.1_Nonsense_Mutation_p.E856*|PASK_uc010zom.1_Nonsense_Mutation_p.E1007*|PASK_uc010fzl.1_Nonsense_Mutation_p.E1042*|PASK_uc010zon.1_Nonsense_Mutation_p.E823*|PASK_uc002wap.2_Nonsense_Mutation_p.E585*|PASK_uc002waq.2_Nonsense_Mutation_p.E1042*	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	1042	Protein kinase.				regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		TTGGGATCCTCAATCCAACAA	0.463													11	66	---	---	---	---	PASS
SCN10A	6336	broad.mit.edu	37	3	38835434	38835434	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:38835434T>C	uc003ciq.2	-	1	68	c.68A>G	c.(67-69)GAG>GGG	p.E23G		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	23					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CTTCTCTATCTCCACCAGTGA	0.488													24	83	---	---	---	---	PASS
CSRNP1	64651	broad.mit.edu	37	3	39184890	39184890	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:39184890C>T	uc003cjg.2	-	5	1640	c.1426G>A	c.(1426-1428)GGC>AGC	p.G476S	CSRNP1_uc003cjh.2_Missense_Mutation_p.G476S	NM_033027	NP_149016	Q96S65	CSRN1_HUMAN	AXIN1 up-regulated 1	476					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(4)|skin(1)	5						GGAAGGCTGCCTTCCCTTGAC	0.552													5	20	---	---	---	---	PASS
ATRIP	84126	broad.mit.edu	37	3	48506925	48506925	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:48506925T>C	uc003ctf.1	+	13	2380	c.2348T>C	c.(2347-2349)GTG>GCG	p.V783A	ATRIP_uc011bbj.1_Missense_Mutation_p.V656A|ATRIP_uc003ctg.1_Missense_Mutation_p.V756A|TREX1_uc010hjy.2_5'UTR|TREX1_uc003ctj.2_5'UTR|TREX1_uc003ctk.2_5'Flank|TREX1_uc010hjz.2_5'Flank|TREX1_uc010hka.2_5'Flank	NM_130384	NP_569055	Q8WXE1	ATRIP_HUMAN	ATR interacting protein isoform 1	783					DNA damage checkpoint|DNA repair|DNA replication	nucleoplasm	protein binding|protein serine/threonine kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GAAACCGATGTGGAAGACCCC	0.592								Other_conserved_DNA_damage_response_genes			OREG0015557	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	32	---	---	---	---	PASS
DAG1	1605	broad.mit.edu	37	3	49548205	49548205	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:49548205G>T	uc003cxc.3	+	2	656	c.238G>T	c.(238-240)GTG>TTG	p.V80L		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	80	Required for laminin recognition.				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		CTCATTTCGAGTGACCATTCC	0.488													7	17	---	---	---	---	PASS
STXBP5L	9515	broad.mit.edu	37	3	120977942	120977942	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:120977942A>G	uc003eec.3	+	18	2025	c.1885A>G	c.(1885-1887)ATT>GTT	p.I629V	STXBP5L_uc011bji.1_Missense_Mutation_p.I629V	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	629	WD 9.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		AGAACTTGTTATTCAATTGGT	0.363													18	54	---	---	---	---	PASS
PIK3R4	30849	broad.mit.edu	37	3	130442333	130442333	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:130442333G>C	uc003enj.2	-	7	2487	c.1906C>G	c.(1906-1908)CTT>GTT	p.L636V		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	636					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						AGGGCATAAAGAGCTTTCACA	0.423													13	61	---	---	---	---	PASS
SLCO2A1	6578	broad.mit.edu	37	3	133692622	133692622	+	Silent	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:133692622C>A	uc003eqa.3	-	3	556	c.282G>T	c.(280-282)CGG>CGT	p.R94R	SLCO2A1_uc003eqb.3_Silent_p.R94R|SLCO2A1_uc011blv.1_Silent_p.R94R|SLCO2A1_uc010htw.1_5'UTR	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	94	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						GACGGTGCACCCGGCTGCCAA	0.572													6	24	---	---	---	---	PASS
SI	6476	broad.mit.edu	37	3	164712183	164712183	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:164712183G>T	uc003fei.2	-	41	4765	c.4703C>A	c.(4702-4704)CCC>CAC	p.P1568H		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1568	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	CCAGGAAGCGGGATCTTGTCT	0.299										HNSCC(35;0.089)			15	71	---	---	---	---	PASS
TNIK	23043	broad.mit.edu	37	3	170857278	170857278	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:170857278T>C	uc003fhh.2	-	14	1745	c.1400A>G	c.(1399-1401)CAT>CGT	p.H467R	TNIK_uc003fhi.2_Missense_Mutation_p.H467R|TNIK_uc003fhj.2_Intron|TNIK_uc003fhk.2_Missense_Mutation_p.H467R|TNIK_uc003fhl.2_Intron|TNIK_uc003fhm.2_Missense_Mutation_p.H467R|TNIK_uc003fhn.2_Intron|TNIK_uc003fho.2_Intron	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	467	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			AGCTTGTTCATGCAGTAGCTG	0.408													28	120	---	---	---	---	PASS
ABCC5	10057	broad.mit.edu	37	3	183685506	183685506	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:183685506G>C	uc003fmg.2	-	12	1975	c.1810C>G	c.(1810-1812)CTC>GTC	p.L604V	ABCC5_uc011bqt.1_Missense_Mutation_p.L132V|ABCC5_uc010hxl.2_Missense_Mutation_p.L604V	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	604	ABC transporter 1.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GCTGAAATGAGAGAGGTTTTT	0.433													29	290	---	---	---	---	PASS
MUC4	4585	broad.mit.edu	37	3	195505742	195505742	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:195505742G>C	uc011bto.1	-	3	12785	c.12325C>G	c.(12325-12327)CAC>GAC	p.H4109D	MUC4_uc003fva.2_5'UTR|MUC4_uc003fvb.2_5'UTR|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_5'UTR|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_5'UTR|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_5'UTR|MUC4_uc011bti.1_5'UTR|MUC4_uc011btj.1_5'UTR|MUC4_uc011btk.1_5'UTR|MUC4_uc011btl.1_5'UTR|MUC4_uc011btm.1_5'UTR|MUC4_uc011btn.1_5'UTR|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.H849D	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	994	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGGGTGGCGTGACCTGTGGAT	0.587													5	31	---	---	---	---	PASS
CPZ	8532	broad.mit.edu	37	4	8602977	8602977	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:8602977C>A	uc003glm.2	+	3	375	c.249C>A	c.(247-249)AGC>AGA	p.S83R	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_5'UTR|CPZ_uc003glo.2_Missense_Mutation_p.S72R|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	83	FZ.				proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						TCCTGCTGAGCGTTCTACACC	0.662													4	48	---	---	---	---	PASS
SLC2A9	56606	broad.mit.edu	37	4	9998458	9998458	+	Silent	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:9998458G>A	uc003gmc.2	-	3	418	c.357C>T	c.(355-357)ATC>ATT	p.I119I	SLC2A9_uc003gmd.2_Silent_p.I90I	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein	119	Helical; Name=2; (Potential).				glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						CAAGTCCACCGATGGCGAATA	0.493													10	47	---	---	---	---	PASS
SLIT2	9353	broad.mit.edu	37	4	20533637	20533637	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:20533637G>T	uc003gpr.1	+	17	1848	c.1644G>T	c.(1642-1644)TTG>TTT	p.L548F	SLIT2_uc003gps.1_Missense_Mutation_p.L540F	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	548	LRR 12.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TTACCGTGTTGGAAGCCACAG	0.303													5	26	---	---	---	---	PASS
GPR125	166647	broad.mit.edu	37	4	22444340	22444340	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:22444340C>T	uc003gqm.1	-	7	1118	c.853G>A	c.(853-855)GAA>AAA	p.E285K	GPR125_uc010ieo.1_Missense_Mutation_p.E159K|GPR125_uc003gqn.1_Missense_Mutation_p.E59K|GPR125_uc003gqo.2_Missense_Mutation_p.E285K	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	285	Extracellular (Potential).|Ig-like.				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				TCATCGGTTTCAACTATTCTC	0.373													8	41	---	---	---	---	PASS
APBB2	323	broad.mit.edu	37	4	41016138	41016138	+	Silent	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:41016138C>A	uc003gvl.2	-	6	927	c.297G>T	c.(295-297)CTG>CTT	p.L99L	APBB2_uc003gvm.2_Silent_p.L99L|APBB2_uc003gvn.2_Silent_p.L99L|APBB2_uc011byt.1_Silent_p.L82L	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	99					cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						CATTTTTCACCAGCTTGATGT	0.542													9	44	---	---	---	---	PASS
BEND4	389206	broad.mit.edu	37	4	42145770	42145770	+	Silent	SNP	A	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:42145770A>G	uc003gwn.2	-	3	1309	c.729T>C	c.(727-729)TCT>TCC	p.S243S	BEND4_uc003gwm.2_Silent_p.S243S|BEND4_uc011byy.1_Silent_p.S243S	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	243											0						TCAAAAAGGCAGAAGTTTGTT	0.463													10	64	---	---	---	---	PASS
GABRG1	2565	broad.mit.edu	37	4	46067427	46067427	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:46067427G>T	uc003gxb.2	-	4	648	c.496C>A	c.(496-498)CGT>AGT	p.R166S		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	166	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		CGAAGCAGACGATTAGGAGTT	0.338													12	60	---	---	---	---	PASS
GABRG1	2565	broad.mit.edu	37	4	46067487	46067487	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:46067487G>T	uc003gxb.2	-	4	588	c.436C>A	c.(436-438)CCT>ACT	p.P146T		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	146	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		AAAGTGTCAGGAATCCAAATT	0.358													4	52	---	---	---	---	PASS
UGT2B10	7365	broad.mit.edu	37	4	69682026	69682026	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:69682026T>C	uc003hee.2	+	1	314	c.289T>C	c.(289-291)TCA>CCA	p.S97P	UGT2B10_uc011cam.1_Missense_Mutation_p.S97P	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	97					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						TAAGAGATTGTCAGAAATTCA	0.313													14	58	---	---	---	---	PASS
GRSF1	2926	broad.mit.edu	37	4	71702001	71702001	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:71702001G>C	uc010iia.1	-	2	471	c.388C>G	c.(388-390)CCA>GCA	p.P130A	GRSF1_uc011caz.1_Missense_Mutation_p.P12A|GRSF1_uc003hfs.2_5'UTR	NM_002092	NP_002083	Q12849	GRSF1_HUMAN	G-rich RNA sequence binding factor 1 isoform 1	130	RRM 1.				mRNA polyadenylation		mRNA binding|nucleotide binding				0		all_hematologic(202;0.21)	Lung(101;0.235)			GGGGGTGGTGGAAGGTCTTCC	0.413													6	54	---	---	---	---	PASS
PRKG2	5593	broad.mit.edu	37	4	82065400	82065400	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:82065400T>G	uc003hmh.2	-	9	1253	c.1239A>C	c.(1237-1239)GAA>GAC	p.E413D	PRKG2_uc011ccf.1_5'UTR|PRKG2_uc011ccg.1_5'UTR|PRKG2_uc011cch.1_Missense_Mutation_p.E413D	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	413	cGMP 2.				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						CATGTCTTTTTTCATCATCAC	0.423													9	46	---	---	---	---	PASS
NKX6-1	4825	broad.mit.edu	37	4	85414579	85414579	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:85414579C>A	uc003hpa.1	-	3	973	c.967G>T	c.(967-969)GAC>TAC	p.D323Y		NM_006168	NP_006159	P78426	NKX61_HUMAN	NK6 transcription factor related, locus 1	323	Involved in DNA-binding (By similarity).				detection of glucose|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|type B pancreatic cell maturation	nucleus					0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.0013)		TAGTCGTCGTCCTCTTCCTCG	0.607													14	91	---	---	---	---	PASS
GRID2	2895	broad.mit.edu	37	4	94693265	94693265	+	Silent	SNP	T	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:94693265T>A	uc011cdt.1	+	16	2898	c.2640T>A	c.(2638-2640)CGT>CGA	p.R880R	GRID2_uc011cdu.1_Silent_p.R785R	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	880	Cytoplasmic (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	TCCATAGACGTGTAAATAGCT	0.423													19	81	---	---	---	---	PASS
USP38	84640	broad.mit.edu	37	4	144109067	144109067	+	Silent	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:144109067T>C	uc003ijb.2	+	2	1305	c.771T>C	c.(769-771)ACT>ACC	p.T257T	USP38_uc003ija.3_Silent_p.T257T|USP38_uc003ijc.2_RNA	NM_032557	NP_115946	Q8NB14	UBP38_HUMAN	ubiquitin specific peptidase 38	257					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_hematologic(180;0.158)					GGAGCCTTACTACGGATCCAA	0.403													6	34	---	---	---	---	PASS
ZNF827	152485	broad.mit.edu	37	4	146770699	146770699	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:146770699C>A	uc003ikn.2	-	6	2044	c.1996G>T	c.(1996-1998)GAA>TAA	p.E666*	ZNF827_uc003ikm.2_Nonsense_Mutation_p.E666*|ZNF827_uc010iox.2_Nonsense_Mutation_p.E316*	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	666					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					ATCTGTGTTTCCTTGTAGCTT	0.443													25	93	---	---	---	---	PASS
KIAA0922	23240	broad.mit.edu	37	4	154548808	154548808	+	Silent	SNP	T	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:154548808T>A	uc003inm.3	+	31	4225	c.4173T>A	c.(4171-4173)CCT>CCA	p.P1391P	KIAA0922_uc010ipp.2_Silent_p.P1392P|KIAA0922_uc010ipq.2_Silent_p.P1160P	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	1391	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				CCAGCCTTCCTGCCGGGCCCA	0.532													5	27	---	---	---	---	PASS
KLKB1	3818	broad.mit.edu	37	4	187178488	187178488	+	Missense_Mutation	SNP	G	A	A	rs150832692		TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr4:187178488G>A	uc003iyy.2	+	14	1765	c.1694G>A	c.(1693-1695)GGC>GAC	p.G565D	KLKB1_uc011clc.1_Missense_Mutation_p.G363D|KLKB1_uc011cld.1_Intron	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	565	Peptidase S1.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		GTCTGTGCTGGCTATAAAGAA	0.318													11	79	---	---	---	---	PASS
ZNF622	90441	broad.mit.edu	37	5	16451871	16451871	+	Silent	SNP	T	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:16451871T>G	uc003jfq.2	-	6	1449	c.1329A>C	c.(1327-1329)CGA>CGC	p.R443R		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	443						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						ACTGCATGTCTCGCTCTCGCA	0.433													38	78	---	---	---	---	PASS
SLC45A2	51151	broad.mit.edu	37	5	33982512	33982512	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:33982512T>C	uc003jid.2	-	2	483	c.391A>G	c.(391-393)ATT>GTT	p.I131V	SLC45A2_uc003jie.2_Missense_Mutation_p.I131V|SLC45A2_uc003jif.3_Missense_Mutation_p.I131V|SLC45A2_uc011coe.1_Missense_Mutation_p.I131V	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	131	Helical; Name=3; (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GGGTTAGCAATCAAAGCTAAA	0.398													7	28	---	---	---	---	PASS
PCYOX1L	78991	broad.mit.edu	37	5	148745559	148745559	+	Silent	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:148745559C>G	uc003lqk.2	+	4	587	c.525C>G	c.(523-525)CTC>CTG	p.L175L	PCYOX1L_uc003lql.2_Silent_p.L158L|PCYOX1L_uc010jgz.2_Intron|PCYOX1L_uc003lqm.2_Silent_p.L57L|PCYOX1L_uc003lqn.2_Silent_p.L85L	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	175					prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGAGCTGCTCTACTCACTGG	0.547													14	38	---	---	---	---	PASS
ANXA6	309	broad.mit.edu	37	5	150505989	150505989	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:150505989C>A	uc003ltl.1	-	14	1182	c.1030G>T	c.(1030-1032)GAA>TAA	p.E344*	ANXA6_uc011dcp.1_Nonsense_Mutation_p.E312*|ANXA6_uc003ltm.1_Nonsense_Mutation_p.E344*|ANXA6_uc003ltn.1_Nonsense_Mutation_p.E137*|ANXA6_uc003lto.1_Intron	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	344						melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCACTAAGTTCCCACATCTGA	0.572											OREG0016946	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	11	---	---	---	---	PASS
DOCK2	1794	broad.mit.edu	37	5	169474568	169474568	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:169474568G>C	uc003maf.2	+	40	4101	c.4021G>C	c.(4021-4023)GAC>CAC	p.D1341H	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.D833H	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1341	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCCCAAACCAGACTACTTTGC	0.507													9	29	---	---	---	---	PASS
FBXW11	23291	broad.mit.edu	37	5	171305017	171305017	+	Silent	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:171305017C>A	uc003mbm.1	-	7	1277	c.906G>T	c.(904-906)GTG>GTT	p.V302V	FBXW11_uc011dey.1_Silent_p.V270V|FBXW11_uc003mbl.1_Silent_p.V289V|FBXW11_uc003mbn.1_Silent_p.V268V	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	302	WD 2.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TCACTCACCTCACCGTAGAAT	0.458													13	32	---	---	---	---	PASS
PHACTR1	221692	broad.mit.edu	37	6	13053641	13053641	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:13053641G>A	uc010jpc.2	+	5	627	c.295G>A	c.(295-297)GTC>ATC	p.V99I	PHACTR1_uc011dir.1_Missense_Mutation_p.V99I|PHACTR1_uc003nag.1_Missense_Mutation_p.V99I|PHACTR1_uc003nah.1_Missense_Mutation_p.V99I	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	99						cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			TGACTCCCTCGTCCCAGGCAC	0.478													8	19	---	---	---	---	PASS
BTN2A2	10385	broad.mit.edu	37	6	26385438	26385438	+	Missense_Mutation	SNP	G	A	A	rs144702884	byFrequency	TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:26385438G>A	uc003nhq.2	+	3	376	c.290G>A	c.(289-291)CGG>CAG	p.R97Q	BTN2A2_uc011dkf.1_Intron|BTN2A2_uc011dkg.1_Missense_Mutation_p.R97Q|BTN2A2_uc003nhr.2_Intron|BTN2A2_uc011dkh.1_Intron|BTN2A2_uc003nhs.2_Missense_Mutation_p.R97Q|BTN2A2_uc003nht.2_Missense_Mutation_p.R97Q	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	97	Extracellular (Potential).|Ig-like V-type.				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						GAGGAGTACCGGGGAAGAATC	0.552													22	64	---	---	---	---	PASS
HIST1H2AH	85235	broad.mit.edu	37	6	27115008	27115008	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:27115008T>G	uc003niz.2	+	1	101	c.101T>G	c.(100-102)CTG>CGG	p.L34R	HIST1H2BK_uc003nix.1_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080596	NP_542163	Q96KK5	H2A1H_HUMAN	histone cluster 1, H2ah	34					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GTGCACCGCCTGCTCCGCAAG	0.652													10	47	---	---	---	---	PASS
PGBD1	84547	broad.mit.edu	37	6	28268508	28268508	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:28268508G>T	uc003nky.2	+	7	1247	c.877G>T	c.(877-879)GCA>TCA	p.A293S	PGBD1_uc003nkz.2_Missense_Mutation_p.A293S	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	293					viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						CAGAGAGTGTGCACCCCAGAT	0.423													6	62	---	---	---	---	PASS
OR2W1	26692	broad.mit.edu	37	6	29012694	29012694	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:29012694C>A	uc003nlw.2	-	1	259	c.259G>T	c.(259-261)GGA>TGA	p.G87*		NM_030903	NP_112165	Q9Y3N9	OR2W1_HUMAN	olfactory receptor, family 2, subfamily W,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TTATCAGGTCCCCACAAGTTG	0.438													8	48	---	---	---	---	PASS
C6orf10	10665	broad.mit.edu	37	6	32261379	32261379	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:32261379C>T	uc011dpy.1	-	12	1244	c.1071G>A	c.(1069-1071)GGG>GGA	p.G357G	C6orf10_uc011dpx.1_Silent_p.G139G	NM_006781	NP_006772	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	357						integral to membrane				skin(1)	1						GTACAACCAACCCACTCTTCG	0.478													36	87	---	---	---	---	PASS
FTSJD2	23070	broad.mit.edu	37	6	37420895	37420895	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:37420895C>G	uc003ons.2	+	7	935	c.682C>G	c.(682-684)CGA>GGA	p.R228G	FTSJD2_uc010jwu.2_Intron	NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	228					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						TGAGATGATCCGAGGAGTCTT	0.507													15	74	---	---	---	---	PASS
CENPQ	55166	broad.mit.edu	37	6	49459937	49459937	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:49459937G>T	uc003ozh.1	+	9	845	c.756G>T	c.(754-756)AAG>AAT	p.K252N		NM_018132	NP_060602	Q7L2Z9	CENPQ_HUMAN	centromere protein Q	252					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2	Lung NSC(77;0.0128)					CACAGATGAAGAGCATGTCAA	0.323													7	30	---	---	---	---	PASS
COL19A1	1310	broad.mit.edu	37	6	70909429	70909429	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:70909429C>G	uc003pfc.1	+	49	3329	c.3212C>G	c.(3211-3213)CCT>CGT	p.P1071R		NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	1071	Triple-helical region 6 (COL6).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CCAGGAGACCCTGGACCCCAA	0.468													17	24	---	---	---	---	PASS
KIAA1009	22832	broad.mit.edu	37	6	84910599	84910599	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:84910599G>C	uc010kbp.2	-	9	840	c.743C>G	c.(742-744)TCT>TGT	p.S248C	KIAA1009_uc003pkj.3_Missense_Mutation_p.S172C|KIAA1009_uc003pkk.2_Missense_Mutation_p.S248C	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	248					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		CTCTGCAACAGAGTCTAATGA	0.333													17	82	---	---	---	---	PASS
HACE1	57531	broad.mit.edu	37	6	105259227	105259227	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:105259227C>A	uc003pqu.1	-	7	853	c.576G>T	c.(574-576)AGG>AGT	p.R192S	HACE1_uc010kcy.1_5'UTR|HACE1_uc010kcz.1_Missense_Mutation_p.R192S	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	192	ANK 4.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		ATACATTTGGCCTGTTAATAT	0.313													17	61	---	---	---	---	PASS
AKD1	221264	broad.mit.edu	37	6	109867265	109867265	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:109867265C>T	uc003ptn.2	-	26	3107	c.3030G>A	c.(3028-3030)CAG>CAA	p.Q1010Q	AKD1_uc011eat.1_Silent_p.Q89Q	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1010					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						TTTCTGCCAACTGTCTTCCAC	0.448													12	89	---	---	---	---	PASS
C6orf204	387119	broad.mit.edu	37	6	118791756	118791756	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:118791756C>T	uc003pxz.1	-	11	2554	c.1966G>A	c.(1966-1968)GAA>AAA	p.E656K		NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	656	Potential.					centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		TCCAGCTCTTCCATCATCTTT	0.318													13	34	---	---	---	---	PASS
C6orf204	387119	broad.mit.edu	37	6	118887127	118887127	+	Silent	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:118887127T>C	uc003pxz.1	-	3	1173	c.585A>G	c.(583-585)CAA>CAG	p.Q195Q	C6orf204_uc003pya.1_Silent_p.Q198Q|C6orf204_uc003pyb.2_Silent_p.Q195Q|C6orf204_uc011ebj.1_Silent_p.Q93Q|C6orf204_uc003pyc.2_Silent_p.Q198Q|C6orf204_uc011ebl.1_Silent_p.Q93Q	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	195						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		TTGTCCTCAGTTGTGATGTTA	0.453													15	53	---	---	---	---	PASS
PDE10A	10846	broad.mit.edu	37	6	165842174	165842174	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:165842174G>A	uc003qun.2	-	11	1038	c.797C>T	c.(796-798)GCA>GTA	p.A266V	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.A196V|PDE10A_uc003quo.2_Missense_Mutation_p.A276V	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	266	GAF 2.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	AGAATCTATTGCAACTATGTT	0.308													7	19	---	---	---	---	PASS
MLLT4	4301	broad.mit.edu	37	6	168311987	168311987	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr6:168311987A>G	uc003qwd.2	+	15	1994	c.1852A>G	c.(1852-1854)ATT>GTT	p.I618V	MLLT4_uc003qwb.1_Missense_Mutation_p.I603V|MLLT4_uc003qwc.1_Missense_Mutation_p.I619V|MLLT4_uc003qwf.2_Missense_Mutation_p.I304V|MLLT4_uc003qwg.1_5'Flank	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	619					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		TTTGTCTGCCATTATAAATTA	0.328			T	MLL	AL								44	75	---	---	---	---	PASS
MAD1L1	8379	broad.mit.edu	37	7	2269698	2269698	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:2269698C>A	uc003slh.1	-	3	337	c.71G>T	c.(70-72)CGT>CTT	p.R24L	MAD1L1_uc003slf.1_Missense_Mutation_p.R24L|MAD1L1_uc003slg.1_Missense_Mutation_p.R24L|MAD1L1_uc010ksh.1_Missense_Mutation_p.R24L|MAD1L1_uc003sli.1_Intron|MAD1L1_uc010ksi.1_Missense_Mutation_p.R24L|MAD1L1_uc010ksj.2_Missense_Mutation_p.R24L	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	24					cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		TCCCTCCACACGCTGAGAGAT	0.537													9	12	---	---	---	---	PASS
DNAH11	8701	broad.mit.edu	37	7	21744181	21744181	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:21744181G>C	uc003svc.2	+	39	6455	c.6424G>C	c.(6424-6426)GAA>CAA	p.E2142Q		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2142					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GCTGCACTTTGAACAGATGGT	0.537									Kartagener_syndrome				18	37	---	---	---	---	PASS
ZPBP	11055	broad.mit.edu	37	7	50057903	50057903	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:50057903A>T	uc003tou.2	-	6	786	c.716T>A	c.(715-717)CTA>CAA	p.L239Q	ZPBP_uc011kci.1_Missense_Mutation_p.L165Q|ZPBP_uc010kyw.2_Missense_Mutation_p.L238Q	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1	239					binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					TTCAGTGTCTAGAGATGAAAC	0.299													4	21	---	---	---	---	PASS
ZNF804B	219578	broad.mit.edu	37	7	88963726	88963726	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:88963726C>A	uc011khi.1	+	4	1968	c.1430C>A	c.(1429-1431)CCA>CAA	p.P477Q		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	477						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)			GGCTGCAACCCACTGTATTTT	0.428										HNSCC(36;0.09)			17	31	---	---	---	---	PASS
MUC17	140453	broad.mit.edu	37	7	100686315	100686315	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:100686315G>A	uc003uxp.1	+	3	11671	c.11618G>A	c.(11617-11619)AGC>AAC	p.S3873N	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3873	Extracellular (Potential).					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)					AGTGAAAGAAGCACTCCATTA	0.473													25	69	---	---	---	---	PASS
CUX1	1523	broad.mit.edu	37	7	101847741	101847741	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:101847741A>T	uc003uyx.3	+	19	3016	c.2978A>T	c.(2977-2979)CAG>CTG	p.Q993L	CUX1_uc003uys.3_Missense_Mutation_p.Q1004L|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	993	CUT 2.				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						AAGCTGACGCAGAAAGGCCGA	0.632													22	56	---	---	---	---	PASS
CADPS2	93664	broad.mit.edu	37	7	122047684	122047684	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:122047684C>A	uc010lkp.2	-	19	2819	c.2656G>T	c.(2656-2658)GAT>TAT	p.D886Y	CADPS2_uc011knx.1_Missense_Mutation_p.D261Y|CADPS2_uc003vkg.3_Missense_Mutation_p.D580Y|CADPS2_uc010lkq.2_Missense_Mutation_p.D880Y	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	886	Interaction with DRD2.|MHD1.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						GTGTCCATATCCACTGTAAAT	0.403													9	20	---	---	---	---	PASS
CHRM2	1129	broad.mit.edu	37	7	136700549	136700549	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:136700549G>T	uc003vtf.1	+	4	1560	c.937G>T	c.(937-939)GGC>TGC	p.G313C	CHRM2_uc003vtg.1_Missense_Mutation_p.G313C|CHRM2_uc003vtj.1_Missense_Mutation_p.G313C|CHRM2_uc003vtk.1_Missense_Mutation_p.G313C|CHRM2_uc003vtl.1_Missense_Mutation_p.G313C|CHRM2_uc003vtm.1_Missense_Mutation_p.G313C|CHRM2_uc003vti.1_Missense_Mutation_p.G313C|CHRM2_uc003vto.1_Missense_Mutation_p.G313C|CHRM2_uc003vtn.1_Missense_Mutation_p.G313C|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	313	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	CACTTCCCTGGGCCATTCCAA	0.463													34	58	---	---	---	---	PASS
WDR60	55112	broad.mit.edu	37	7	158705762	158705762	+	Silent	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr7:158705762G>T	uc003woe.3	+	13	1835	c.1677G>T	c.(1675-1677)CCG>CCT	p.P559P	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Silent_p.P191P	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	559										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		CCCAGCACCCGGGAGAAAGTA	0.378													12	26	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	3224705	3224705	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr8:3224705C>T	uc011kwk.1	-	20	3357	c.2967G>A	c.(2965-2967)GAG>GAA	p.E989E	CSMD1_uc011kwj.1_Silent_p.E381E|CSMD1_uc003wqe.2_Silent_p.E145E	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	989	Extracellular (Potential).|CUB 6.					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)		AACTTCCATCCTCTGTGATCA	0.468													4	40	---	---	---	---	PASS
ANK1	286	broad.mit.edu	37	8	41554238	41554238	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr8:41554238C>T	uc003xok.2	-	25	2775	c.2691G>A	c.(2689-2691)GAG>GAA	p.E897E	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Silent_p.E213E|ANK1_uc003xoi.2_Silent_p.E897E|ANK1_uc003xoj.2_Silent_p.E897E|ANK1_uc003xol.2_Silent_p.E897E|ANK1_uc003xom.2_Silent_p.E938E	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	897					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TGTCTGAGGTCTCGGTGGCCG	0.647													10	16	---	---	---	---	PASS
CHD7	55636	broad.mit.edu	37	8	61654299	61654299	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr8:61654299C>T	uc003xue.2	+	2	785	c.308C>T	c.(307-309)TCG>TTG	p.S103L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	103					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TCTCCGCACTCGCAGTATCAC	0.547													15	26	---	---	---	---	PASS
LRRCC1	85444	broad.mit.edu	37	8	86050585	86050585	+	Silent	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr8:86050585G>C	uc003ycw.2	+	17	2869	c.2715G>C	c.(2713-2715)CGG>CGC	p.R905R	LRRCC1_uc003ycx.2_Silent_p.R812R|LRRCC1_uc003ycy.2_Silent_p.R885R	NM_033402	NP_208325	Q9C099	LRCC1_HUMAN	sodium channel associated protein 2 isoform a	905					cell division|mitosis	centriole|nucleus					0						CACTGAATCGGAAGTGGCATG	0.289													18	53	---	---	---	---	PASS
AZIN1	51582	broad.mit.edu	37	8	103848592	103848592	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr8:103848592T>C	uc003ykx.2	-	7	1218	c.476A>G	c.(475-477)GAT>GGT	p.D159G	AZIN1_uc003yky.2_Missense_Mutation_p.D159G	NM_015878	NP_056962	O14977	AZIN1_HUMAN	ornithine decarboxylase antizyme inhibitor	159					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)			TCCAATATTATCTTCTGTTGC	0.413													22	77	---	---	---	---	PASS
RLN2	6019	broad.mit.edu	37	9	5300281	5300281	+	Silent	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr9:5300281G>C	uc003zja.1	-	2	375	c.375C>G	c.(373-375)CTC>CTG	p.L125L	RLN2_uc003ziz.1_3'UTR	NM_134441	NP_604390	P04090	REL2_HUMAN	relaxin 2 isoform 1 preproprotein	125					female pregnancy	extracellular region	hormone activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0201)|Lung(218;0.0987)		ATTCTTCAAAGAGAAGACTGG	0.398													13	45	---	---	---	---	PASS
OR13F1	138805	broad.mit.edu	37	9	107267037	107267037	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr9:107267037C>A	uc011lvm.1	+	1	494	c.494C>A	c.(493-495)CCA>CAA	p.P165Q		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						TCTGTGCTGCCACTGTCTCTC	0.473													17	32	---	---	---	---	PASS
TOR1B	27348	broad.mit.edu	37	9	132565604	132565604	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr9:132565604C>T	uc004byk.1	+	1	173	c.113C>T	c.(112-114)TCG>TTG	p.S38L		NM_014506	NP_055321	O14657	TOR1B_HUMAN	torsin family 1, member B (torsin B) precursor	38					chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen	ATP binding|nucleoside-triphosphatase activity|unfolded protein binding				0		Ovarian(14;0.0586)				GGGGCCGCGTCGGCCATCACC	0.736													4	4	---	---	---	---	PASS
KIAA1462	57608	broad.mit.edu	37	10	30336572	30336572	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:30336572C>T	uc001iux.2	-	1	229	c.170G>A	c.(169-171)CGT>CAT	p.R57H	KIAA1462_uc001iuy.2_Missense_Mutation_p.R57H|KIAA1462_uc001iuz.2_5'UTR|KIAA1462_uc009xle.1_Missense_Mutation_p.R57H	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	57										ovary(4)	4						GGACGTCTTACGATGTGCGAG	0.662													12	38	---	---	---	---	PASS
ZEB1	6935	broad.mit.edu	37	10	31809073	31809073	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:31809073C>T	uc001ivs.3	+	7	873	c.810C>T	c.(808-810)TGC>TGT	p.C270C	ZEB1_uc001ivr.3_Silent_p.C52C|ZEB1_uc010qee.1_Silent_p.C52C|ZEB1_uc010qef.1_Silent_p.C52C|ZEB1_uc009xlj.1_Silent_p.C196C|ZEB1_uc010qeg.1_Silent_p.C129C|ZEB1_uc009xlk.1_Silent_p.C52C|ZEB1_uc001ivt.3_Silent_p.C52C|ZEB1_uc001ivu.3_Silent_p.C271C|ZEB1_uc001ivv.3_Silent_p.C250C|ZEB1_uc010qeh.1_Silent_p.C203C|ZEB1_uc009xlo.1_Silent_p.C253C|ZEB1_uc009xlp.2_Silent_p.C254C	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	270	C2H2-type 4; atypical.				cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				CATATGAATGCCCAAACTGCA	0.358													8	19	---	---	---	---	PASS
ANKRD30A	91074	broad.mit.edu	37	10	37431132	37431132	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:37431132C>T	uc001iza.1	+	7	1238	c.1139C>T	c.(1138-1140)TCT>TTT	p.S380F		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	436						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AGAGTAACATCTAATAAAACT	0.388													27	64	---	---	---	---	PASS
FRMPD2	143162	broad.mit.edu	37	10	49431303	49431303	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:49431303G>C	uc001jgi.2	-	11	1286	c.1179C>G	c.(1177-1179)TTC>TTG	p.F393L	FRMPD2_uc001jgh.2_Missense_Mutation_p.F362L|FRMPD2_uc001jgj.2_Missense_Mutation_p.F371L	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	393	FERM.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CCAGGAAAAAGAACTCTTTGC	0.478													8	36	---	---	---	---	PASS
C10orf71	118461	broad.mit.edu	37	10	50532080	50532080	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:50532080C>A	uc010qgp.1	+	3	1829	c.1490C>A	c.(1489-1491)CCT>CAT	p.P497H		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	497											0						TCCAAAGCCCCTAGCCTGCTG	0.517													15	25	---	---	---	---	PASS
UNC5B	219699	broad.mit.edu	37	10	73047494	73047494	+	Silent	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:73047494G>A	uc001jro.2	+	6	1318	c.873G>A	c.(871-873)CAG>CAA	p.Q291Q	UNC5B_uc001jrp.2_Silent_p.Q291Q	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	291	TSP type-1 1.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						AGGCATTCCAGAAGACCGCCT	0.657													14	28	---	---	---	---	PASS
TDRD1	56165	broad.mit.edu	37	10	115973781	115973781	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:115973781G>T	uc001lbg.1	+	16	2273	c.2120G>T	c.(2119-2121)TGG>TTG	p.W707L	TDRD1_uc001lbf.2_Missense_Mutation_p.W641L|TDRD1_uc001lbh.1_Missense_Mutation_p.W698L|TDRD1_uc001lbi.1_Missense_Mutation_p.W698L|TDRD1_uc010qsc.1_Missense_Mutation_p.W311L|TDRD1_uc001lbj.2_Missense_Mutation_p.W416L	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	707					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GAGTGGACATGGGTTGAACTT	0.408													23	37	---	---	---	---	PASS
TUBGCP2	10844	broad.mit.edu	37	10	135095751	135095751	+	Silent	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:135095751C>A	uc001lmg.1	-	16	2742	c.2385G>T	c.(2383-2385)CGG>CGT	p.R795R	TUBGCP2_uc001lmf.1_Silent_p.R388R|TUBGCP2_uc010qvc.1_Silent_p.R823R|TUBGCP2_uc009ybk.1_Silent_p.R818R|TUBGCP2_uc010qvd.1_Silent_p.R665R|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	795					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		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;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		CCTTCCGGGCCCGCTCCTCGG	0.667													9	9	---	---	---	---	PASS
OR51S1	119692	broad.mit.edu	37	11	4869932	4869932	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:4869932G>C	uc010qyo.1	-	1	507	c.507C>G	c.(505-507)TTC>TTG	p.F169L		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGGCCAGCAGGAATGGCAGGG	0.552													21	76	---	---	---	---	PASS
CSRP3	8048	broad.mit.edu	37	11	19207795	19207795	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:19207795A>T	uc001mpk.2	-	4	499	c.382T>A	c.(382-384)TAT>AAT	p.Y128N		NM_003476	NP_003467	P50461	CSRP3_HUMAN	cysteine and glycine-rich protein 3	128	LIM zinc-binding 2.				cell differentiation|skeletal muscle tissue development	cytoskeleton|nucleus	protein binding|zinc ion binding				0						TCAGCAGCATAGACTGACTTG	0.527													9	56	---	---	---	---	PASS
LRP4	4038	broad.mit.edu	37	11	46893077	46893077	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:46893077T>C	uc001ndn.3	-	31	4837	c.4691A>G	c.(4690-4692)CAG>CGG	p.Q1564R	uc001ndl.2_Intron	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1564	Extracellular (Potential).|LDL-receptor class B 19.				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)		AGCCAGTACCTGTGTGAGGGC	0.542													3	13	---	---	---	---	PASS
MS4A3	932	broad.mit.edu	37	11	59828788	59828788	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:59828788G>A	uc001nom.2	+	2	283	c.155G>A	c.(154-156)GGG>GAG	p.G52E	MS4A3_uc001non.2_Missense_Mutation_p.G52E|MS4A3_uc001noo.2_Intron	NM_006138	NP_006129	Q96HJ5	MS4A3_HUMAN	membrane-spanning 4-domains, subfamily A, member	52	Helical; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm	protein binding|receptor activity			ovary(2)|skin(1)	3		all_epithelial(135;0.245)				CAAGTTCTTGGGGTAAGTCAG	0.318													17	68	---	---	---	---	PASS
MS4A4A	51338	broad.mit.edu	37	11	60059779	60059779	+	Silent	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:60059779A>T	uc001noz.2	+	2	133	c.123A>T	c.(121-123)GGA>GGT	p.G41G	MS4A4A_uc001npa.2_Silent_p.G22G|MS4A4A_uc001npb.2_Silent_p.G22G|MS4A4A_uc001npc.2_Silent_p.G22G	NM_148975	NP_683876	Q96JQ5	M4A4A_HUMAN	membrane-spanning 4-domains, subfamily A, member	41	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						CCCAGCTGGGAAACATGGCTG	0.488													10	37	---	---	---	---	PASS
MS4A14	84689	broad.mit.edu	37	11	60183397	60183397	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:60183397A>G	uc001npj.2	+	5	1521	c.956A>G	c.(955-957)GAC>GGC	p.D319G	MS4A14_uc001npi.2_Missense_Mutation_p.D207G|MS4A14_uc001npn.2_Missense_Mutation_p.D57G|MS4A14_uc001npk.2_Missense_Mutation_p.D302G|MS4A14_uc001npl.2_Missense_Mutation_p.D57G|MS4A14_uc001npm.2_Missense_Mutation_p.D57G	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	319						integral to membrane	receptor activity			breast(1)	1						TCACCTGAAGACTTGCCATCC	0.453													13	64	---	---	---	---	PASS
CAPN1	823	broad.mit.edu	37	11	64977857	64977857	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:64977857G>A	uc009yqd.1	+	20	2104	c.1993G>A	c.(1993-1995)GAG>AAG	p.E665K	CAPN1_uc001odf.1_Missense_Mutation_p.E665K|CAPN1_uc001odg.1_Missense_Mutation_p.E665K|CAPN1_uc010roa.1_Missense_Mutation_p.E406K	NM_005186	NP_005177	P07384	CAN1_HUMAN	calpain 1, large subunit	665	Domain IV.				positive regulation of cell proliferation|proteolysis	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Lung NSC(402;0.094)|Melanoma(852;0.16)		Lung(977;0.00168)|LUSC - Lung squamous cell carcinoma(976;0.00813)		CCGCTACTCGGAGCCCGACCT	0.592													3	15	---	---	---	---	PASS
ODZ4	26011	broad.mit.edu	37	11	78380075	78380075	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:78380075G>T	uc001ozl.3	-	32	7778	c.7315C>A	c.(7315-7317)CTT>ATT	p.L2439I	ODZ4_uc001ozk.3_Missense_Mutation_p.L664I|ODZ4_uc009yvb.1_Missense_Mutation_p.L1023I	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2439	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CTGCTACTAAGGTGCTTCCAC	0.507													10	40	---	---	---	---	PASS
CASP1	834	broad.mit.edu	37	11	104899950	104899950	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr11:104899950C>A	uc010rve.1	-	7	924	c.907G>T	c.(907-909)GGA>TGA	p.G303*	CASP1_uc001pig.2_Nonsense_Mutation_p.G210*|CASP1_uc001pik.2_Nonsense_Mutation_p.G266*|CASP1_uc010rvf.1_Nonsense_Mutation_p.G210*|CASP1_uc010rvg.1_Nonsense_Mutation_p.G282*|CASP1_uc010rvh.1_Intron|CASP1_uc010rvi.1_Intron|CASP1_uc001pim.3_Nonsense_Mutation_p.G303*|CASP1_uc009yxi.2_Nonsense_Mutation_p.G282*|CASP1_uc010rvj.1_Nonsense_Mutation_p.G303*|CASP1_uc009yxj.2_Nonsense_Mutation_p.G148*|CASP1_uc010rvk.1_Nonsense_Mutation_p.G264*	NM_033292	NP_150634	P29466	CASP1_HUMAN	caspase 1 isoform alpha precursor	303					cellular response to mechanical stimulus|cellular response to organic substance|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis|signal transduction	cytosol	caspase activator activity|cysteine-type endopeptidase activity|protein binding			ovary(2)	2		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000525)|Epithelial(105;0.0128)|all cancers(92;0.0482)	Minocycline(DB01017)|Penicillamine(DB00859)	GATAGGTTTCCAGAAACTCCT	0.418													7	23	---	---	---	---	PASS
CD163L1	283316	broad.mit.edu	37	12	7527242	7527242	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:7527242C>T	uc001qsy.2	-	13	3231	c.3205G>A	c.(3205-3207)GAT>AAT	p.D1069N	CD163L1_uc010sge.1_Missense_Mutation_p.D1079N	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	1069	SRCR 10.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity	p.D1069fs*27(1)		ovary(8)|skin(2)|central_nervous_system(1)	11						ACGTGGGCATCGCTCAGGTCC	0.617											OREG0021653	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	47	---	---	---	---	PASS
KLRG1	10219	broad.mit.edu	37	12	9147764	9147764	+	Nonsense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:9147764G>A	uc001qvh.2	+	3	248	c.237G>A	c.(235-237)TGG>TGA	p.W79*	KLRG1_uc001qvg.2_Nonsense_Mutation_p.W79*	NM_005810	NP_005801	Q96E93	KLRG1_HUMAN	killer cell lectin-like receptor subfamily G,	79	Extracellular (Potential).				cell surface receptor linked signaling pathway|cellular defense response|inflammatory response|regulation of immune response	integral to membrane	receptor activity|sugar binding			central_nervous_system(1)	1						CAGACCGCTGGATGAAATATG	0.483													5	39	---	---	---	---	PASS
PRB2	653247	broad.mit.edu	37	12	11546519	11546519	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:11546519G>C	uc010shk.1	-	3	528	c.493C>G	c.(493-495)CAA>GAA	p.Q165E		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			TTGTCTCCTTGTGGGGGTGGT	0.607													27	261	---	---	---	---	PASS
PTPRO	5800	broad.mit.edu	37	12	15654796	15654796	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:15654796A>C	uc001rcv.1	+	5	1078	c.904A>C	c.(904-906)AGT>CGT	p.S302R	PTPRO_uc001rcw.1_Missense_Mutation_p.S302R|PTPRO_uc001rcu.1_Missense_Mutation_p.S302R	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	302	Fibronectin type-III 3.|Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				TTGGTGGGACAGTGCATCTGC	0.443													7	25	---	---	---	---	PASS
SLCO1B3	28234	broad.mit.edu	37	12	21242966	21242966	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:21242966C>A	uc010sil.1	+	16	2238	c.2173C>A	c.(2173-2175)CAA>AAA	p.Q725K	LST-3TM12_uc010sim.1_Missense_Mutation_p.Q664K|LST-3TM12_uc010sin.1_Missense_Mutation_p.Q617K			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					AAATGAAAGACAAGTAATGGA	0.313													8	28	---	---	---	---	PASS
PFKM	5213	broad.mit.edu	37	12	48535133	48535133	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:48535133G>C	uc001rrc.2	+	15	1551	c.1381G>C	c.(1381-1383)GGC>CGC	p.G461R	PFKM_uc001rra.1_Missense_Mutation_p.G146R|PFKM_uc001rrb.1_Missense_Mutation_p.G532R|PFKM_uc001rrd.2_Missense_Mutation_p.G146R|PFKM_uc001rre.1_Missense_Mutation_p.G461R|PFKM_uc001rrg.1_Missense_Mutation_p.G430R	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	461					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						GGGCTGGACTGGCCAAGGTGG	0.537													20	60	---	---	---	---	PASS
NCKAP5L	57701	broad.mit.edu	37	12	50186238	50186238	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:50186238C>G	uc009zlk.2	-	12	3985	c.3783G>C	c.(3781-3783)AGG>AGC	p.R1261S	NCKAP5L_uc001rvc.3_Missense_Mutation_p.R465S|NCKAP5L_uc001rvb.2_Missense_Mutation_p.R854S	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	1257	Pro-rich.									central_nervous_system(1)	1						CCATGGGGGTCCTGGGCAGCC	0.612													4	15	---	---	---	---	PASS
SUOX	6821	broad.mit.edu	37	12	56397818	56397818	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:56397818C>T	uc001six.2	+	6	971	c.645C>T	c.(643-645)TTC>TTT	p.F215F	SUOX_uc001siy.2_Silent_p.F215F|SUOX_uc001siz.2_Silent_p.F215F|SUOX_uc001sja.2_Silent_p.F215F	NM_000456	NP_000447	P51687	SUOX_HUMAN	sulfite oxidase precursor	215	Molybdenum-pterin domain (By similarity).|Molybdenum-pterin-binding (By similarity).					mitochondrial intermembrane space	electron carrier activity|molybdenum ion binding|sulfite oxidase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.119)			CTATCTTCTTCACCCGGAACC	0.552													17	69	---	---	---	---	PASS
PAN2	9924	broad.mit.edu	37	12	56722284	56722284	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:56722284G>A	uc001skx.2	-	3	797	c.424C>T	c.(424-426)CGT>TGT	p.R142C	PAN2_uc001skz.2_Missense_Mutation_p.R142C|PAN2_uc001sky.2_Missense_Mutation_p.R142C	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	142					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						AGGCCCCCACGGGCCATATAC	0.488													26	83	---	---	---	---	PASS
CRADD	8738	broad.mit.edu	37	12	94072576	94072576	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:94072576T>A	uc001tda.2	+	2	130	c.26T>A	c.(25-27)CTC>CAC	p.L9H	CRADD_uc010sur.1_Missense_Mutation_p.L9H|CRADD_uc010sus.1_RNA	NM_003805	NP_003796	P78560	CRADD_HUMAN	CASP2 and RIPK1 domain containing adaptor with	9	CARD.				apoptosis|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|signal transduction	intracellular	death domain binding|protease binding|protein binding, bridging			ovary(1)	1						AAACAAGTACTCCGCTCACTT	0.488													17	34	---	---	---	---	PASS
APAF1	317	broad.mit.edu	37	12	99061383	99061383	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:99061383C>G	uc001tfz.2	+	10	2032	c.1455C>G	c.(1453-1455)AAC>AAG	p.N485K	APAF1_uc001tfy.2_Missense_Mutation_p.N474K|APAF1_uc001tga.2_Missense_Mutation_p.N474K|APAF1_uc001tgb.2_Missense_Mutation_p.N485K|APAF1_uc001tgc.2_Intron	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	485					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)	ATTGGTACAACTTTCTGGCCT	0.393													16	49	---	---	---	---	PASS
SLC5A8	160728	broad.mit.edu	37	12	101555843	101555843	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:101555843C>G	uc001thz.3	-	13	1929	c.1539G>C	c.(1537-1539)ATG>ATC	p.M513I		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	513	Extracellular (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						ACCAGTTATCCATCAGTGGAG	0.388													27	67	---	---	---	---	PASS
C12orf43	64897	broad.mit.edu	37	12	121442168	121442168	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr12:121442168A>C	uc001tzh.1	-	6	600	c.577T>G	c.(577-579)TTG>GTG	p.L193V	C12orf43_uc009zxa.1_Missense_Mutation_p.L224V|C12orf43_uc010szo.1_Missense_Mutation_p.L152V|C12orf43_uc010szp.1_Missense_Mutation_p.L183V|C12orf43_uc001tzi.1_Missense_Mutation_p.L194V	NM_022895	NP_075046	Q96C57	CL043_HUMAN	hypothetical protein LOC64897	193	Lys-rich.										0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TTCTTTTTCAACTTCCTTTTC	0.587													19	50	---	---	---	---	PASS
MPHOSPH8	54737	broad.mit.edu	37	13	20224398	20224398	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:20224398C>T	uc001umh.2	+	5	1583	c.1574C>T	c.(1573-1575)TCA>TTA	p.S525L	MPHOSPH8_uc001umg.2_Missense_Mutation_p.S525L|MPHOSPH8_uc001umi.2_Missense_Mutation_p.S222L	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	525					cell cycle	cytoplasm|nucleus					0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		GATGAGAATTCAGGTGAGTTT	0.398													42	56	---	---	---	---	PASS
PCDH17	27253	broad.mit.edu	37	13	58299048	58299048	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:58299048T>A	uc001vhq.1	+	4	3992	c.3100T>A	c.(3100-3102)TCA>ACA	p.S1034T	PCDH17_uc010aec.1_Missense_Mutation_p.S1033T|PCDH17_uc001vhr.1_Missense_Mutation_p.S123T	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	1034	Cytoplasmic (Potential).				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)		AGAGGTCCCCTCAGCATCAAG	0.522													28	49	---	---	---	---	PASS
RNF219	79596	broad.mit.edu	37	13	79219120	79219120	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:79219120C>A	uc001vkw.1	-	2	144	c.85G>T	c.(85-87)GTC>TTC	p.V29F	RNF219_uc010afb.1_5'UTR|RNF219_uc010afc.2_Missense_Mutation_p.V29F	NM_024546	NP_078822	Q5W0B1	RN219_HUMAN	ring finger protein 219	29	RING-type; degenerate.						zinc ion binding			large_intestine(2)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.0414)		ATGCATATGACAGGCTGACGT	0.383													25	34	---	---	---	---	PASS
IPO5	3843	broad.mit.edu	37	13	98673325	98673325	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:98673325G>C	uc001vne.2	+	28	3379	c.3199G>C	c.(3199-3201)GAG>CAG	p.E1067Q		NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	1049					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						AGAAATGCACGAGGCAATTAA	0.418													44	124	---	---	---	---	PASS
COL4A2	1284	broad.mit.edu	37	13	111099172	111099172	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:111099172G>T	uc001vqx.2	+	18	1328	c.1039G>T	c.(1039-1041)GGA>TGA	p.G347*		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	347	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			AGGGCCCCCTGGACTACCTGC	0.473													22	41	---	---	---	---	PASS
COL4A2	1284	broad.mit.edu	37	13	111099173	111099173	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:111099173G>C	uc001vqx.2	+	18	1329	c.1040G>C	c.(1039-1041)GGA>GCA	p.G347A		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	347	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GGGCCCCCTGGACTACCTGCC	0.478													22	41	---	---	---	---	PASS
TSSK4	283629	broad.mit.edu	37	14	24676618	24676618	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:24676618A>T	uc001wng.2	+	3	875	c.707A>T	c.(706-708)CAT>CTT	p.H236L	TM9SF1_uc010tob.1_Intron|TSSK4_uc001wne.2_Missense_Mutation_p.H160L|TSSK4_uc001wnf.2_Missense_Mutation_p.H166L|TSSK4_uc001wnh.2_Missense_Mutation_p.H246L	NM_174944	NP_777604	Q6SA08	TSSK4_HUMAN	testis-specific serine kinase 4	236	Protein kinase.				cell differentiation|multicellular organismal development|positive regulation of CREB transcription factor activity|spermatogenesis		ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity				0				GBM - Glioblastoma multiforme(265;0.018)		GTGGTCGCCCATCTGCCCTTT	0.517													34	65	---	---	---	---	PASS
MDGA2	161357	broad.mit.edu	37	14	47504430	47504430	+	Nonsense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:47504430G>A	uc001wwj.3	-	8	1592	c.1396C>T	c.(1396-1398)CAA>TAA	p.Q466*	MDGA2_uc001wwi.3_Nonsense_Mutation_p.Q237*|MDGA2_uc010ani.2_Nonsense_Mutation_p.Q26*	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	466	Ig-like 5.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CCAGTTACTTGACATTGCAGT	0.408													16	67	---	---	---	---	PASS
KTN1	3895	broad.mit.edu	37	14	56083372	56083372	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:56083372G>T	uc001xcb.2	+	4	963	c.661G>T	c.(661-663)GTC>TTC	p.V221F	KTN1_uc001xce.2_Missense_Mutation_p.V221F|KTN1_uc001xcc.2_Missense_Mutation_p.V221F|KTN1_uc001xcd.2_Missense_Mutation_p.V221F|KTN1_uc010trb.1_Missense_Mutation_p.V221F|KTN1_uc001xcf.1_Missense_Mutation_p.V221F	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	221	Lumenal (Potential).				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						GACAGAAAATGGTGAGATGTT	0.388			T	RET	papillary thryoid								6	66	---	---	---	---	PASS
C14orf37	145407	broad.mit.edu	37	14	58563647	58563647	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:58563647C>G	uc001xdc.2	-	5	1995	c.1884G>C	c.(1882-1884)GAG>GAC	p.E628D	C14orf37_uc010tro.1_Missense_Mutation_p.E666D|C14orf37_uc001xdd.2_Missense_Mutation_p.E628D	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	628	Extracellular (Potential).|Glu-rich.					integral to membrane	binding				0						cctcatcttcctcttcttcat	0.279													13	29	---	---	---	---	PASS
SYNE2	23224	broad.mit.edu	37	14	64443309	64443309	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:64443309A>T	uc001xgm.2	+	12	1387	c.1157A>T	c.(1156-1158)TAT>TTT	p.Y386F	SYNE2_uc001xgl.2_Missense_Mutation_p.Y386F	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	386	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AAGCTAAATTATGCCTTGCCC	0.378													78	144	---	---	---	---	PASS
SIPA1L1	26037	broad.mit.edu	37	14	72138134	72138134	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:72138134G>T	uc001xms.2	+	8	2902	c.2554G>T	c.(2554-2556)GAG>TAG	p.E852*	SIPA1L1_uc001xmt.2_Nonsense_Mutation_p.E852*|SIPA1L1_uc001xmu.2_Nonsense_Mutation_p.E852*|SIPA1L1_uc001xmv.2_Nonsense_Mutation_p.E852*|SIPA1L1_uc010ttm.1_Nonsense_Mutation_p.E327*	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	852					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TCCAGGAGCCGAGCTCAGCAG	0.502													18	41	---	---	---	---	PASS
RGS6	9628	broad.mit.edu	37	14	72976929	72976929	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:72976929G>A	uc001xna.3	+	14	1556	c.1033G>A	c.(1033-1035)GTG>ATG	p.V345M	RGS6_uc010ttn.1_Missense_Mutation_p.V345M|RGS6_uc001xmx.3_Missense_Mutation_p.V345M|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.V345M|RGS6_uc010ttp.1_Missense_Mutation_p.V276M|RGS6_uc001xmz.1_Missense_Mutation_p.V206M	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	345	RGS.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		GAAGGACCAGGTGGGGCGGGA	0.468													64	114	---	---	---	---	PASS
KCNK10	54207	broad.mit.edu	37	14	88652109	88652109	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:88652109T>C	uc001xwo.2	-	7	1844	c.1387A>G	c.(1387-1389)AAG>GAG	p.K463E	KCNK10_uc001xwm.2_Missense_Mutation_p.K468E|KCNK10_uc001xwn.2_Missense_Mutation_p.K468E	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	463	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						GGCAAGGTCTTTTTGAGGTCC	0.507													17	94	---	---	---	---	PASS
BTBD7	55727	broad.mit.edu	37	14	93727992	93727992	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:93727992A>G	uc001ybo.2	-	5	1729	c.1403T>C	c.(1402-1404)ATT>ACT	p.I468T	BTBD7_uc010aur.2_5'UTR|BTBD7_uc010two.1_Intron|BTBD7_uc001ybp.2_Missense_Mutation_p.I117T|BTBD7_uc001ybq.3_Missense_Mutation_p.I383T	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	468										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		TCCCCATTTAATCAGATATTT	0.303													7	78	---	---	---	---	PASS
BTBD7	55727	broad.mit.edu	37	14	93761256	93761256	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:93761256T>C	uc001ybo.2	-	3	436	c.110A>G	c.(109-111)TAT>TGT	p.Y37C	BTBD7_uc010aur.2_5'UTR|BTBD7_uc010two.1_5'UTR|BTBD7_uc001ybp.2_Intron|BTBD7_uc001ybq.3_5'UTR|BTBD7_uc001ybr.2_Missense_Mutation_p.Y37C	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	37										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		TTCGCAACCATAGCCTTGCTG	0.343													23	57	---	---	---	---	PASS
CDC42BPB	9578	broad.mit.edu	37	14	103406186	103406186	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:103406186C>G	uc001ymi.1	-	33	4922	c.4690G>C	c.(4690-4692)GAG>CAG	p.E1564Q		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	1564					actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TGCAGTCTCTCTTCCTCTGGG	0.612													66	123	---	---	---	---	PASS
MKRN3	7681	broad.mit.edu	37	15	23811224	23811224	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:23811224A>T	uc001ywh.3	+	1	771	c.295A>T	c.(295-297)ATC>TTC	p.I99F	MKRN3_uc001ywi.2_Missense_Mutation_p.I99F|MKRN3_uc010ayi.1_Missense_Mutation_p.I99F	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	99	C3H1-type 1.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GACAAAGCAGATCATCTGCAG	0.602													9	48	---	---	---	---	PASS
ATP10A	57194	broad.mit.edu	37	15	26026288	26026288	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:26026288G>T	uc010ayu.2	-	2	638	c.532C>A	c.(532-534)CCT>ACT	p.P178T		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	178	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		ATGTCCGCAGGGAAGATTTCG	0.527													10	55	---	---	---	---	PASS
ATP10A	57194	broad.mit.edu	37	15	26026289	26026289	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:26026289G>T	uc010ayu.2	-	2	637	c.531C>A	c.(529-531)TTC>TTA	p.F177L		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	177	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TGTCCGCAGGGAAGATTTCGT	0.527													9	56	---	---	---	---	PASS
ARHGAP11A	9824	broad.mit.edu	37	15	32928116	32928116	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:32928116G>T	uc001zgy.1	+	11	2205	c.1483G>T	c.(1483-1485)GGT>TGT	p.G495C	ARHGAP11A_uc010ubw.1_Missense_Mutation_p.G306C|ARHGAP11A_uc001zgw.2_Missense_Mutation_p.G495C|ARHGAP11A_uc001zgx.2_Missense_Mutation_p.G467C|ARHGAP11A_uc010ubx.1_Missense_Mutation_p.G306C	NM_014783	NP_055598	Q6P4F7	RHGBA_HUMAN	Rho GTPase activating protein 11A isoform 1	495					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			skin(3)|breast(2)|urinary_tract(1)	6		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)		ACCAAAGAAAGGTACATTTAC	0.294													11	23	---	---	---	---	PASS
RAD51	5888	broad.mit.edu	37	15	40993374	40993374	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:40993374G>T	uc001zmi.3	+	3	499	c.200G>T	c.(199-201)AGT>ATT	p.S67I	RAD51_uc010bbw.2_Missense_Mutation_p.S67I|RAD51_uc010bbx.2_Missense_Mutation_p.S67I|RAD51_uc001zmk.3_RNA|RAD51_uc001zml.3_Missense_Mutation_p.S67I|RAD51_uc001zmm.1_RNA|RAD51_uc001zmn.1_5'UTR	NM_002875	NP_002866	Q06609	RAD51_HUMAN	RAD51 homolog protein isoform 1	67	HhH.				DNA recombinase assembly|DNA unwinding involved in replication|mitotic recombination|positive regulation of DNA ligation|protein homooligomerization|reciprocal meiotic recombination	mitochondrial matrix|nucleus|perinuclear region of cytoplasm|PML body	ATP binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|protein C-terminus binding|single-stranded DNA binding|single-stranded DNA-dependent ATPase activity				0		all_cancers(109;1.19e-18)|all_epithelial(112;2.33e-15)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.45e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000421)|COAD - Colon adenocarcinoma(120;0.163)		AAGGGAATTAGTGAAGCCAAA	0.403								Homologous_recombination					17	81	---	---	---	---	PASS
CAPN3	825	broad.mit.edu	37	15	42693865	42693865	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:42693865C>T	uc001zpn.1	+	11	1687	c.1381C>T	c.(1381-1383)CGT>TGT	p.R461C	CAPN3_uc001zpk.1_Missense_Mutation_p.R234C|CAPN3_uc001zpl.1_Missense_Mutation_p.R374C|CAPN3_uc010udf.1_Missense_Mutation_p.R374C|CAPN3_uc010udg.1_Missense_Mutation_p.R326C|CAPN3_uc001zpo.1_Missense_Mutation_p.R461C|CAPN3_uc001zpp.1_Missense_Mutation_p.R413C|CAPN3_uc001zpq.1_5'Flank	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	461	Domain III.				muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		CCCTCAGTACCGTCTGAAGCT	0.582													13	38	---	---	---	---	PASS
DUOX1	53905	broad.mit.edu	37	15	45427450	45427450	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:45427450C>T	uc001zus.1	+	6	802	c.456C>T	c.(454-456)GAC>GAT	p.D152D	DUOX1_uc001zut.1_Silent_p.D152D|DUOX1_uc010bee.1_5'UTR	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	152	Peroxidase-like; mediates peroxidase activity.|Extracellular (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		GCCGCTGGGACCCCGAGACCG	0.716													5	16	---	---	---	---	PASS
CEP152	22995	broad.mit.edu	37	15	49031141	49031141	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:49031141C>T	uc001zwy.2	-	26	4304	c.4270G>A	c.(4270-4272)GAC>AAC	p.D1424N	CEP152_uc001zwz.2_Missense_Mutation_p.D1480N	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	1424					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		CTGAGTAGGTCTTTCTTCTTG	0.453													9	73	---	---	---	---	PASS
TEX9	374618	broad.mit.edu	37	15	56680704	56680704	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:56680704C>A	uc002adp.2	+	5	303	c.298C>A	c.(298-300)CAT>AAT	p.H100N	TEX9_uc002ado.1_Missense_Mutation_p.H100N|TEX9_uc010ugl.1_Missense_Mutation_p.H25N|TEX9_uc002adq.1_Missense_Mutation_p.H25N	NM_198524	NP_940926	Q8N6V9	TEX9_HUMAN	testis expressed 9	100											0				all cancers(107;0.0394)|GBM - Glioblastoma multiforme(80;0.056)		AGTTCATCTTCATTCAGAAAC	0.328													5	41	---	---	---	---	PASS
HMG20A	10363	broad.mit.edu	37	15	77769937	77769937	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr15:77769937C>T	uc002bcr.2	+	8	857	c.656C>T	c.(655-657)CCT>CTT	p.P219L	HMG20A_uc002bcs.2_Missense_Mutation_p.P219L	NM_018200	NP_060670	Q9NP66	HM20A_HUMAN	high-mobility group 20A	219					chromatin modification	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						TTTGACATCCCTATATTTACA	0.328													5	26	---	---	---	---	PASS
NARFL	64428	broad.mit.edu	37	16	780560	780560	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:780560C>T	uc002cjr.2	-	11	1300	c.1288G>A	c.(1288-1290)GAG>AAG	p.E430K	NARFL_uc002cjp.2_Missense_Mutation_p.E328K|NARFL_uc002cjq.2_Missense_Mutation_p.E328K|NARFL_uc002cjs.2_Missense_Mutation_p.E212K	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	430					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				TCGGGCGCCTCAGCCCGGACC	0.667													6	46	---	---	---	---	PASS
GRIN2A	2903	broad.mit.edu	37	16	9857679	9857679	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:9857679C>T	uc002czo.3	-	13	4270	c.3722G>A	c.(3721-3723)CGG>CAG	p.R1241Q	GRIN2A_uc010uym.1_Missense_Mutation_p.R1241Q|GRIN2A_uc010uyn.1_Missense_Mutation_p.R1084Q|GRIN2A_uc002czr.3_Missense_Mutation_p.R1241Q	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1241	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GTTCCCCATCCGCAGGCAGGC	0.582													10	91	---	---	---	---	PASS
SLC5A11	115584	broad.mit.edu	37	16	24920378	24920378	+	Silent	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:24920378C>A	uc002dmu.2	+	14	1843	c.1611C>A	c.(1609-1611)TCC>TCA	p.S537S	SLC5A11_uc002dms.2_Silent_p.S473S|SLC5A11_uc010vcd.1_Silent_p.S502S|SLC5A11_uc002dmt.2_Silent_p.S381S|SLC5A11_uc010vce.1_Silent_p.S467S|SLC5A11_uc010bxt.2_Silent_p.S473S|SLC5A11_uc002dmv.2_Silent_p.S160S	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	537	Helical; (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		TCACTGTCTCCACCGTGAGCT	0.468													12	39	---	---	---	---	PASS
NFATC2IP	84901	broad.mit.edu	37	16	28967563	28967563	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:28967563G>T	uc002dru.2	+	5	766	c.751G>T	c.(751-753)GTC>TTC	p.V251F	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Intron|NFATC2IP_uc002drv.2_5'UTR|NFATC2IP_uc010vdh.1_5'Flank	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,	251						cytoplasm|nucleus				ovary(1)	1						GGATGAAGTGGTCTTGGTGGA	0.607													14	31	---	---	---	---	PASS
C16orf57	79650	broad.mit.edu	37	16	58043878	58043878	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:58043878C>T	uc002emz.2	+	3	394	c.311C>T	c.(310-312)CCC>CTC	p.P104L	C16orf57_uc010via.1_Missense_Mutation_p.P104L|C16orf57_uc002emy.2_RNA|C16orf57_uc010vib.1_Missense_Mutation_p.P104L|C16orf57_uc010vic.1_Missense_Mutation_p.P53L	NM_024598	NP_078874	Q9BQ65	CP057_HUMAN	hypothetical protein LOC79650	104											0						GTGTTGCTGCCCCATGCCCAG	0.592													34	77	---	---	---	---	PASS
PDP2	57546	broad.mit.edu	37	16	66918398	66918398	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:66918398G>T	uc002eqk.1	+	2	373	c.211G>T	c.(211-213)GAT>TAT	p.D71Y		NM_020786	NP_065837	Q9P2J9	PDP2_HUMAN	pyruvate dehydrogenase phosphatase isoenzyme 2	71					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity|metal ion binding			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		AACAGAGGAAGATGATTTTCA	0.488													5	73	---	---	---	---	PASS
ZFHX3	463	broad.mit.edu	37	16	72992122	72992122	+	Silent	SNP	C	T	T	rs150601682	by1000genomes	TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:72992122C>T	uc002fck.2	-	2	2596	c.1923G>A	c.(1921-1923)GAG>GAA	p.E641E	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	641	C2H2-type 2.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ATTTGGGGCACTCCACGCCAC	0.642													7	16	---	---	---	---	PASS
TUBB3	10381	broad.mit.edu	37	16	90001435	90001435	+	Silent	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:90001435G>T	uc002fph.1	+	4	641	c.576G>T	c.(574-576)CTG>CTT	p.L192L	TUBB3_uc002fpf.2_Silent_p.L539L|TUBB3_uc010ciz.1_Silent_p.L120L|TUBB3_uc002fpg.1_Silent_p.L46L|TUBB3_uc002fpi.1_Silent_p.L120L|TUBB3_uc002fpj.1_Silent_p.L120L|TUBB3_uc010cjb.1_Silent_p.L46L|TUBB3_uc002fpk.1_Silent_p.L46L	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	192					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		TCCACCAGCTGGTGGAGAACA	0.612													52	105	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7579311	7579311	+	Splice_Site	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr17:7579311C>A	uc002gim.2	-	4	569	c.375_splice	c.e4+1	p.T125_splice	TP53_uc002gig.1_Splice_Site_p.T125_splice|TP53_uc002gih.2_Splice_Site_p.T125_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Splice_Site_p.T125_splice|TP53_uc010cni.1_Splice_Site_p.T125_splice|TP53_uc002gij.2_Splice_Site_p.T125_splice|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Splice_Site_p.T86_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.?(11)|p.0?(7)|p.V73fs*9(1)|p.Y126fs*11(1)|p.P13fs*18(1)|p.T125_Y126insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGGCAACTGACCGTGCAAGTC	0.532		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			11	45	---	---	---	---	PASS
NF1	4763	broad.mit.edu	37	17	29663350	29663350	+	Splice_Site	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr17:29663350G>T	uc002hgg.2	+	41	6340	c.6007_splice	c.e41-1	p.I2003_splice	NF1_uc002hgh.2_Splice_Site_p.I1982_splice|NF1_uc010cso.2_Splice_Site_p.I191_splice|NF1_uc010wbt.1_5'Flank|NF1_uc010wbu.1_5'Flank	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1						actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TCTTCAACTAGATTACAGATC	0.328			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			9	26	---	---	---	---	PASS
HSF5	124535	broad.mit.edu	37	17	56540167	56540167	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr17:56540167T>G	uc002iwi.1	-	4	1642	c.1518A>C	c.(1516-1518)GAA>GAC	p.E506D		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	506						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					ATGGTGGCCCTTCCTGCACAA	0.433													15	113	---	---	---	---	PASS
DSG1	1828	broad.mit.edu	37	18	28934971	28934971	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr18:28934971A>T	uc002kwp.2	+	15	3024	c.2812A>T	c.(2812-2814)AGT>TGT	p.S938C	DSG1_uc010xbp.1_Missense_Mutation_p.S297C	NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	938	Desmoglein repeat 5.|Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			AGGTAGTCTGAGTATGCACCC	0.483													107	175	---	---	---	---	PASS
DCC	1630	broad.mit.edu	37	18	50976931	50976931	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr18:50976931C>A	uc002lfe.1	+	23	3878	c.3291C>A	c.(3289-3291)AAC>AAA	p.N1097K	DCC_uc010dpf.1_Missense_Mutation_p.N732K	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1097	Extracellular (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AGAACAGCAACCTGCTTGTGA	0.527													14	29	---	---	---	---	PASS
TRIP10	9322	broad.mit.edu	37	19	6751103	6751103	+	Missense_Mutation	SNP	G	C	C	rs139253875	byFrequency	TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:6751103G>C	uc002mfs.2	+	15	1753	c.1687G>C	c.(1687-1689)GAG>CAG	p.E563Q	TRIP10_uc010dux.1_Silent_p.P516P|TRIP10_uc002mfr.2_Missense_Mutation_p.E507Q|TRIP10_uc010duy.2_RNA|TRIP10_uc010duz.2_Missense_Mutation_p.E326Q	NM_004240	NP_004231	Q15642	CIP4_HUMAN	thyroid hormone receptor interactor 10	563	Interaction with PDE6G (By similarity).|SH3.|Required for podosome formation.|Interaction with ARHGAP17, DAAM1, DIAPH1 and DIAPH2.|Interaction with DNM1 and WASL.|Required for interaction with FASLG and localization to lysosomes.|Interaction with WAS.				actin cytoskeleton organization|cell communication|endocytosis|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell projection|cytoskeleton|cytosol|Golgi apparatus|lysosome|perinuclear region of cytoplasm|phagocytic cup	GTPase activator activity|identical protein binding|lipid binding			ovary(1)	1						CTCTATGGCCGAGGGTGAAGA	0.527													13	29	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	8971706	8971706	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:8971706T>A	uc002mkp.2	-	78	43090	c.42886A>T	c.(42886-42888)ACC>TCC	p.T14296S	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.T1096S|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	14379	Extracellular (Potential).			Missing (in Ref. 3; AAK74120).	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						AACTGGTAGGTGGAGCCCAGC	0.527													13	15	---	---	---	---	PASS
EMR3	84658	broad.mit.edu	37	19	14736383	14736383	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:14736383C>G	uc002mzi.3	-	15	1989	c.1841G>C	c.(1840-1842)AGA>ACA	p.R614T	EMR3_uc010dzp.2_Missense_Mutation_p.R562T|EMR3_uc010xnv.1_Missense_Mutation_p.R488T	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	614	Cytoplasmic (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						TACGATCTCTCTAAACCACTT	0.418													11	65	---	---	---	---	PASS
CEACAM5	1048	broad.mit.edu	37	19	42213940	42213940	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:42213940G>A	uc002ork.2	+	2	527	c.406G>A	c.(406-408)GGC>AGC	p.G136S	CEACAM5_uc010ehz.1_Missense_Mutation_p.G136S|CEACAM5_uc002orj.1_Missense_Mutation_p.G136S|CEACAM5_uc002orl.2_Missense_Mutation_p.G136S	NM_004363	NP_004354	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion	136	Ig-like 1.					anchored to membrane|basolateral plasma membrane|integral to plasma membrane				skin(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		AGAAGCAACTGGCCAGTTCCG	0.517													36	170	---	---	---	---	PASS
CD37	951	broad.mit.edu	37	19	49838976	49838976	+	Silent	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:49838976C>A	uc002pnd.2	+	2	196	c.75C>A	c.(73-75)CTC>CTA	p.L25L	uc002pnb.1_Intron|CD37_uc002pnc.2_RNA|CD37_uc010yam.1_Silent_p.L25L|CD37_uc010yan.1_5'UTR|CD37_uc002pnf.3_5'UTR|CD37_uc002pne.2_5'UTR	NM_001774	NP_001765	P11049	CD37_HUMAN	CD37 antigen isoform A	25	Helical; (Potential).					integral to membrane					0		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)		CCCAGGTCCTCGGCAGCCTGA	0.657													67	236	---	---	---	---	PASS
TSKS	60385	broad.mit.edu	37	19	50247496	50247496	+	Silent	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:50247496G>C	uc002ppm.2	-	8	1364	c.1353C>G	c.(1351-1353)CGC>CGG	p.R451R		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	451							protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)		ACCTGGCACAGCGGGCACAGT	0.582													10	41	---	---	---	---	PASS
PTOV1	53635	broad.mit.edu	37	19	50357725	50357725	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:50357725C>T	uc002pqf.1	+	2	404	c.234C>T	c.(232-234)CTC>CTT	p.L78L	uc002ppy.3_5'Flank|PTOV1_uc010ybf.1_Silent_p.L46L|PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Silent_p.L46L|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	78					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		GGCTCACCCTCGGGGGTCTGG	0.667													8	80	---	---	---	---	PASS
ZNF415	55786	broad.mit.edu	37	19	53612438	53612438	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:53612438A>T	uc002qax.2	-	7	1353	c.1004T>A	c.(1003-1005)CTT>CAT	p.L335H	ZNF415_uc002qat.2_Missense_Mutation_p.L299H|ZNF415_uc002qaw.2_Missense_Mutation_p.L287H|ZNF415_uc010yds.1_Missense_Mutation_p.L287H|ZNF415_uc010ydt.1_Missense_Mutation_p.L287H|ZNF415_uc002qau.2_Missense_Mutation_p.L274H|ZNF415_uc002qav.2_Missense_Mutation_p.L299H|ZNF415_uc002qba.2_Missense_Mutation_p.L57H|ZNF415_uc002qay.2_Missense_Mutation_p.L274H|ZNF415_uc002qaz.2_Missense_Mutation_p.L335H	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	335	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		ATGTAGTGCAAGGCATGAGTT	0.413													7	54	---	---	---	---	PASS
EPS8L1	54869	broad.mit.edu	37	19	55597214	55597214	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:55597214G>A	uc002qis.3	+	15	1495	c.1391G>A	c.(1390-1392)CGA>CAA	p.R464Q	EPS8L1_uc010ess.1_Missense_Mutation_p.R478Q|EPS8L1_uc010yfr.1_Missense_Mutation_p.R400Q|EPS8L1_uc010esu.1_RNA|EPS8L1_uc002qiu.2_Missense_Mutation_p.R337Q|EPS8L1_uc002qiv.2_Missense_Mutation_p.R142Q|EPS8L1_uc002qiw.2_Missense_Mutation_p.R243Q	NM_133180	NP_573441	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway	464						cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		CTCAGTCACCGAGACTTGGAG	0.577													15	73	---	---	---	---	PASS
ZNF667	63934	broad.mit.edu	37	19	56953294	56953294	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:56953294G>A	uc002qnd.2	-	5	1232	c.1070C>T	c.(1069-1071)CCG>CTG	p.P357L	ZNF667_uc010etl.2_Missense_Mutation_p.P139L|ZNF667_uc002qne.2_Missense_Mutation_p.P357L|ZNF667_uc010etm.2_Missense_Mutation_p.P300L	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	357					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		ACATTTGTACGGTTTCTCTGA	0.353													11	55	---	---	---	---	PASS
AURKC	6795	broad.mit.edu	37	19	57746259	57746259	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr19:57746259A>G	uc002qoe.2	+	6	781	c.592A>G	c.(592-594)ACA>GCA	p.T198A	AURKC_uc002qoc.2_Missense_Mutation_p.T179A|AURKC_uc002qod.2_Missense_Mutation_p.T164A|AURKC_uc010etv.2_Missense_Mutation_p.T195A	NM_001015878	NP_001015878	Q9UQB9	AURKC_HUMAN	aurora kinase C isoform 1	198	Protein kinase.			T->A: Impairs kinase activity.	cell cycle|cytokinesis	condensed chromosome|cytoplasm|midbody|spindle midzone	ATP binding|protein serine/threonine kinase activity			lung(4)|ovary(2)	6		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0122)		TAGGAGGAAGACAATGTGTGG	0.483													6	46	---	---	---	---	PASS
PDYN	5173	broad.mit.edu	37	20	1961247	1961247	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:1961247G>A	uc010gaj.2	-	3	729	c.487C>T	c.(487-489)CTC>TTC	p.L163F	uc002wfu.1_Intron|PDYN_uc002wfv.2_Missense_Mutation_p.L163F|PDYN_uc010zpt.1_Missense_Mutation_p.L8F	NM_024411	NP_077722	P01213	PDYN_HUMAN	beta-neoendorphin-dynorphin preproprotein	163					cell death|neuropeptide signaling pathway|synaptic transmission	extracellular region|plasma membrane	opioid peptide activity			upper_aerodigestive_tract(1)|ovary(1)	2						TCCTCAGCGAGATAGAGTGTG	0.602													23	75	---	---	---	---	PASS
TMC2	117532	broad.mit.edu	37	20	2575614	2575614	+	Splice_Site	SNP	G	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:2575614G>A	uc002wgf.1	+	9	1091	c.1076_splice	c.e9+1	p.S359_splice	TMC2_uc002wgg.1_Splice_Site_p.S343_splice|TMC2_uc010zpw.1_Splice_Site_p.S191_splice|TMC2_uc010zpx.1_Splice_Site_p.S190_splice	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2							integral to membrane				ovary(3)	3						TCATTCGATCGTAAGTATGAC	0.557													12	54	---	---	---	---	PASS
C20orf79	140856	broad.mit.edu	37	20	18794684	18794684	+	Silent	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:18794684C>A	uc002wrk.2	+	1	315	c.225C>A	c.(223-225)ACC>ACA	p.T75T	uc002wrj.1_Intron	NM_178483	NP_848578	Q9UJQ7	CT079_HUMAN	hypothetical protein LOC140856	75	SCP2.						sterol binding			skin(3)	3						TGGACATCACCAAAAATGGGA	0.493													19	65	---	---	---	---	PASS
RALGAPA2	57186	broad.mit.edu	37	20	20486081	20486081	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:20486081C>A	uc002wrz.2	-	34	5169	c.5026G>T	c.(5026-5028)GAC>TAC	p.D1676Y	RALGAPA2_uc010gcx.2_Missense_Mutation_p.D1380Y|RALGAPA2_uc010zsg.1_Missense_Mutation_p.D1124Y|RALGAPA2_uc002wsa.1_Missense_Mutation_p.D448Y	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1676	Rap-GAP.				activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						GCAACAAAGTCTTCATATGCT	0.403													5	10	---	---	---	---	PASS
PLK1S1	55857	broad.mit.edu	37	20	21143751	21143751	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:21143751A>T	uc002wsb.2	+	6	1436	c.1303A>T	c.(1303-1305)AGC>TGC	p.S435C	PLK1S1_uc010zsh.1_Missense_Mutation_p.S332C|PLK1S1_uc010zsi.1_Missense_Mutation_p.S302C|PLK1S1_uc010zsj.1_RNA|uc002wsc.2_Intron|PLK1S1_uc002wsd.2_RNA	NM_018474	NP_060944	Q2M2Z5	KIZ_HUMAN	polo-like kinase 1 substrate 1 isoform 1	435					spindle organization	centrosome	protein kinase binding				0						GCAAACCCTAAGCTCTCCTGA	0.373													35	139	---	---	---	---	PASS
C20orf185	359710	broad.mit.edu	37	20	31659950	31659950	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:31659950C>A	uc002wym.1	+	13	1301	c.1301C>A	c.(1300-1302)GCA>GAA	p.A434E		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	434					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						GTGGTCGGGGCAGTGTATGCA	0.522													9	38	---	---	---	---	PASS
PCK1	5105	broad.mit.edu	37	20	56139260	56139260	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:56139260T>C	uc002xyn.3	+	7	1160	c.997T>C	c.(997-999)TTC>CTC	p.F333L	PCK1_uc010zzm.1_Missense_Mutation_p.F16L	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	333					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			AAATGGCTTTTTCGGTGTCGC	0.478													5	31	---	---	---	---	PASS
MIR646	693231	broad.mit.edu	37	20	58883553	58883553	+	RNA	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:58883553G>T	hsa-mir-646|MI0003661	+			c.22G>T			uc002ybl.2_Intron|uc010gjw.1_Intron																	0						tgccagtggagtcagcacacc	0.000													8	26	---	---	---	---	PASS
YTHDF1	54915	broad.mit.edu	37	20	61834312	61834312	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr20:61834312C>A	uc002yeh.2	-	4	1274	c.980G>T	c.(979-981)CGC>CTC	p.R327L	YTHDF1_uc011aaq.1_Missense_Mutation_p.R277L	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	327	Gln/Pro-rich.									ovary(2)	2						GGCAACCCAGCGGGTCTGGGG	0.657													10	14	---	---	---	---	PASS
TIAM1	7074	broad.mit.edu	37	21	32513671	32513671	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr21:32513671C>T	uc002yow.1	-	22	4099	c.3627G>A	c.(3625-3627)GCG>GCA	p.A1209A	TIAM1_uc011adk.1_Silent_p.A1209A|TIAM1_uc011adl.1_Silent_p.A1149A	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1209	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CCTCGCTCTCCGCATCGGTCA	0.597													7	63	---	---	---	---	PASS
CRYAA	1409	broad.mit.edu	37	21	44589369	44589369	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr21:44589369C>T	uc002zdd.1	+	1	229	c.160C>T	c.(160-162)CGC>TGC	p.R54C		NM_000394	NP_000385	P02489	CRYAA_HUMAN	crystallin, alpha A	54					anti-apoptosis|negative regulation of intracellular transport|protein homooligomerization|response to heat|visual perception	cytoplasm|nucleus	structural constituent of eye lens|unfolded protein binding			breast(1)|central_nervous_system(1)	2						GTCCCTCTTCCGCACCGTGCT	0.637													32	41	---	---	---	---	PASS
PPIL2	23759	broad.mit.edu	37	22	22039088	22039088	+	Silent	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:22039088A>T	uc010gtj.1	+	10	716	c.600A>T	c.(598-600)ACA>ACT	p.T200T	PPIL2_uc002zvh.3_Silent_p.T200T|PPIL2_uc002zvi.3_Silent_p.T200T|PPIL2_uc002zvg.3_Silent_p.T200T|PPIL2_uc011aij.1_Silent_p.T179T|PPIL2_uc002zvk.3_5'Flank	NM_148175	NP_680480	Q13356	PPIL2_HUMAN	peptidylprolyl isomerase-like 2 isoform a	200	Potential.				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)					TGAAAAATACAAATGCCGAGA	0.542													9	51	---	---	---	---	PASS
MYO18B	84700	broad.mit.edu	37	22	26422777	26422777	+	Silent	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:26422777C>T	uc003abz.1	+	43	7087	c.6837C>T	c.(6835-6837)CCC>CCT	p.P2279P	MYO18B_uc003aca.1_Silent_p.P2160P|MYO18B_uc010guy.1_Silent_p.P2161P|MYO18B_uc010guz.1_Silent_p.P2159P|MYO18B_uc011aka.1_Silent_p.P1433P|MYO18B_uc011akb.1_Silent_p.P1792P|MYO18B_uc010gva.1_Silent_p.P262P|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2279						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CCACTCTCCCCATTTACCAGA	0.642													6	11	---	---	---	---	PASS
SFI1	9814	broad.mit.edu	37	22	31924738	31924738	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:31924738C>G	uc003ale.2	+	3	548	c.155C>G	c.(154-156)TCT>TGT	p.S52C	SFI1_uc003ald.1_Missense_Mutation_p.S52C|SFI1_uc003alf.2_Missense_Mutation_p.S52C|SFI1_uc003alg.2_Intron|SFI1_uc011alp.1_Intron|SFI1_uc011alq.1_Missense_Mutation_p.S52C|SFI1_uc003alh.2_Intron	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	52					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						AACAAGAAGTCTTCTGCATCC	0.443													14	77	---	---	---	---	PASS
ST13	6767	broad.mit.edu	37	22	41223120	41223120	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:41223120C>G	uc003aze.2	-	11	1104	c.961G>C	c.(961-963)GAG>CAG	p.E321Q	ST13_uc011aow.1_Missense_Mutation_p.E311Q	NM_003932	NP_003923	P50502	F10A1_HUMAN	heat shock 70kD protein binding protein	321	STI1.						protein binding, bridging				0						GCAAGAACCTCTGGATCACTA	0.453													7	62	---	---	---	---	PASS
XRCC6	2547	broad.mit.edu	37	22	42042926	42042926	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:42042926T>C	uc003bao.1	+	7	870	c.800T>C	c.(799-801)ATA>ACA	p.I267T	XRCC6_uc003bap.1_Missense_Mutation_p.I226T|XRCC6_uc011apc.1_Missense_Mutation_p.I217T|XRCC6_uc003baq.1_Missense_Mutation_p.I267T|XRCC6_uc003bar.1_Missense_Mutation_p.I267T|XRCC6_uc003bas.1_Missense_Mutation_p.I217T	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit	267	Ku.				DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5						AACAAAGATATAGTGATCTCT	0.398								Direct_reversal_of_damage|NHEJ					31	149	---	---	---	---	PASS
PIM3	415116	broad.mit.edu	37	22	50356677	50356677	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr22:50356677G>T	uc003bjb.2	+	6	1336	c.883G>T	c.(883-885)GGG>TGG	p.G295W	PIM3_uc011arj.1_Missense_Mutation_p.G58W	NM_001001852	NP_001001852	Q86V86	PIM3_HUMAN	serine/threonine protein kinase pim-3	295					cell cycle|negative regulation of apoptosis|regulation of mitotic cell cycle		ATP binding|protein binding|protein serine/threonine kinase activity				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;0.196)|LUAD - Lung adenocarcinoma(64;0.247)		CTGGATGCTGGGGGCTGACGG	0.687													7	13	---	---	---	---	PASS
DHRSX	207063	broad.mit.edu	37	X	2161142	2161142	+	Silent	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:2161142C>A	uc004cqf.3	-	6	775	c.726G>T	c.(724-726)GTG>GTT	p.V242V		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	242							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				CCGTGTTGACCACCCCGGGGT	0.622													11	36	---	---	---	---	PASS
EGFL6	25975	broad.mit.edu	37	X	13645160	13645160	+	Nonsense_Mutation	SNP	T	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:13645160T>A	uc004cvi.2	+	11	1556	c.1316T>A	c.(1315-1317)TTG>TAG	p.L439*	EGFL6_uc004cvj.2_Nonsense_Mutation_p.L440*	NM_015507	NP_056322	Q8IUX8	EGFL6_HUMAN	epidermal growth factor-like protein 6	439	MAM.				cell adhesion|cell cycle|cell differentiation|multicellular organismal development	basement membrane|extracellular space|membrane	calcium ion binding|integrin binding			breast(2)	2						GTTCCGGCCTTGGCAGGTCAC	0.433													31	24	---	---	---	---	PASS
FUNDC1	139341	broad.mit.edu	37	X	44383470	44383470	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:44383470C>T	uc004dgc.2	-	5	585	c.442G>A	c.(442-444)GGC>AGC	p.G148S		NM_173794	NP_776155	Q8IVP5	FUND1_HUMAN	FUN14 domain containing 1	148											0						AGCAAAAAGCCTCCCACAAAT	0.333													7	16	---	---	---	---	PASS
HEPH	9843	broad.mit.edu	37	X	65423336	65423336	+	Silent	SNP	T	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:65423336T>C	uc011moz.1	+	13	2277	c.2217T>C	c.(2215-2217)TAT>TAC	p.Y739Y	HEPH_uc004dwn.2_Silent_p.Y739Y|HEPH_uc004dwo.2_Silent_p.Y469Y|HEPH_uc010nkr.2_Silent_p.Y547Y|HEPH_uc011mpa.1_Silent_p.Y739Y|HEPH_uc010nks.2_Silent_p.Y28Y	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	736	Extracellular (Potential).|Plastocyanin-like 5.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						GAATCTACTATATCATGGCAG	0.527													6	12	---	---	---	---	PASS
TSIX	9383	broad.mit.edu	37	X	73045917	73045917	+	RNA	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:73045917A>T	uc004ebn.2	+	1		c.33878A>T			XIST_uc004ebm.1_RNA	NR_003255				Homo sapiens XIST antisense RNA (non-protein coding) (TSIX), non-coding RNA.												0						CATAACCATCACTAGAAATCC	0.502													28	46	---	---	---	---	PASS
CYLC1	1538	broad.mit.edu	37	X	83129612	83129612	+	Silent	SNP	A	T	T			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:83129612A>T	uc004eei.1	+	4	1917	c.1896A>T	c.(1894-1896)CCA>CCT	p.P632P	CYLC1_uc004eeh.1_Silent_p.P631P	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	632	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						TGCCTCCTCCACCTCCAAAAC	0.393													12	6	---	---	---	---	PASS
SATL1	340562	broad.mit.edu	37	X	84363064	84363064	+	Nonsense_Mutation	SNP	G	C	C			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:84363064G>C	uc011mqx.1	-	1	911	c.911C>G	c.(910-912)TCA>TGA	p.S304*	SATL1_uc004een.2_Nonsense_Mutation_p.S304*	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	117	Gln-rich.						N-acetyltransferase activity			breast(2)	2						GTTTGTACCTGATTGCCTCAT	0.478													10	17	---	---	---	---	PASS
MAGEA11	4110	broad.mit.edu	37	X	148797503	148797503	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:148797503C>A	uc004fdq.2	+	5	459	c.357C>A	c.(355-357)CAC>CAA	p.H119Q	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Missense_Mutation_p.H90Q	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	119						cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					GAAGTCAGCACTGCAAGCCTG	0.587													15	36	---	---	---	---	PASS
VENTXP7	391518	broad.mit.edu	37	3	21447901	21447902	+	RNA	INS	-	CC	CC	rs143568999	by1000genomes	TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr3:21447901_21447902insCC	uc003ccd.2	+	1		c.684_685insCC				NR_002311				Homo sapiens VENT homeobox (Xenopus laevis) pseudogene 7 (VENTXP7), non-coding RNA.												0						CTGGCATACCACCCCCCACGCC	0.663													3	3	---	---	---	---	
LOC729678	729678	broad.mit.edu	37	5	180261938	180261939	+	RNA	DEL	CT	-	-	rs72473031		TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr5:180261938_180261939delCT	uc011dhd.1	+	3		c.2104_2105delCT			LOC729678_uc010jlj.2_RNA|LOC729678_uc003mmk.3_RNA|LOC729678_uc003mml.3_RNA	NR_027183				Homo sapiens cDNA FLJ37851 fis, clone BRSSN2014294.												0						caaaagcttgctctctctctct	0.079													4	2	---	---	---	---	
ANXA8	653145	broad.mit.edu	37	10	47012503	47012503	+	RNA	DEL	G	-	-			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:47012503delG	uc001jed.3	-	4		c.1054delC						P13928	ANXA8_HUMAN	Homo sapiens cDNA FLJ58071 complete cds, highly similar to Annexin A8.						blood coagulation		calcium ion binding|calcium-dependent phospholipid binding			central_nervous_system(3)	3						acacctctctgggcttagtcc	0.015													5	4	---	---	---	---	
PTEN	5728	broad.mit.edu	37	10	89711960	89711960	+	Frame_Shift_Del	DEL	T	-	-			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr10:89711960delT	uc001kfb.2	+	7	1609	c.578delT	c.(577-579)CTGfs	p.L193fs		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	193	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.R55fs*1(4)|p.?(3)|p.G165fs*9(3)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.G165_K342del(1)|p.G165_*404del(1)|p.V191fs*7(1)|p.L193P(1)|p.L193del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		CCAGTGGCACTGTTGTTTCAC	0.398		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			90	41	---	---	---	---	
NALCN	259232	broad.mit.edu	37	13	102029111	102029111	+	Frame_Shift_Del	DEL	A	-	-			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr13:102029111delA	uc001vox.1	-	6	773	c.584delT	c.(583-585)TTAfs	p.L195fs	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Frame_Shift_Del_p.L195fs|NALCN_uc001vpa.2_Frame_Shift_Del_p.L195fs	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	195	Helical; Name=S5 of repeat I; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CTGAACTCCTAAAATTCCATA	0.318													108	50	---	---	---	---	
RPL13AP3	645683	broad.mit.edu	37	14	56233989	56233990	+	RNA	INS	-	A	A			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr14:56233989_56233990insA	uc010aos.2	+	1		c.1027_1028insA				NR_004844				Homo sapiens ribosomal protein L13a pseudogene, mRNA (cDNA clone IMAGE:5271409).												0						TACTTTTAAAGAAAAAAAAaac	0.203													4	2	---	---	---	---	
ZNF598	90850	broad.mit.edu	37	16	2049882	2049883	+	In_Frame_Ins	INS	-	TCC	TCC	rs141374045	by1000genomes	TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chr16:2049882_2049883insTCC	uc002cof.1	-	11	1682_1683	c.1667_1668insGGA	c.(1666-1668)GAC>GAGGAC	p.555_556insE	ZNF598_uc002coe.1_5'UTR	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	555_556						intracellular	zinc ion binding			lung(1)|breast(1)	2						CCGGGCCGCCGTCCTCCTCCTC	0.703													6	8	---	---	---	---	
MSL3	10943	broad.mit.edu	37	X	11782023	11782026	+	Frame_Shift_Del	DEL	CTTC	-	-			TCGA-66-2788-01A-01D-0983-08	TCGA-66-2788-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	2466d424-98bb-4380-9967-36abaa0e69d7	0671bcea-de4c-4838-843a-dc5ff4a99b70	g.chrX:11782023_11782026delCTTC	uc004cuw.2	+	8	979_982	c.874_877delCTTC	c.(874-879)CTTCCAfs	p.L292fs	MSL3_uc004cuv.1_Frame_Shift_Del_p.L292fs|MSL3_uc004cux.2_Frame_Shift_Del_p.L233fs|MSL3_uc011mig.1_Frame_Shift_Del_p.L143fs|MSL3_uc011mih.1_Frame_Shift_Del_p.L280fs|MSL3_uc004cuy.2_Frame_Shift_Del_p.L126fs|MSL3_uc011mii.1_Frame_Shift_Del_p.L126fs	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	292_293					histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TAAATTTTTTCTTCCAATTAAGGA	0.377													36	21	---	---	---	---