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
DFFB	1677	broad.mit.edu	37	1	3800177	3800177	+	Nonsense_Mutation	SNP	G	T	T	rs59649948		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:3800177G>T	uc001alc.2	+	7	1212	c.889G>T	c.(889-891)GAG>TAG	p.E297*	DFFB_uc001ale.2_RNA|DFFB_uc009vlp.2_RNA|DFFB_uc001alb.2_RNA|DFFB_uc010nzn.1_Nonsense_Mutation_p.E321*|DFFB_uc009vlq.2_RNA|DFFB_uc009vlr.2_Nonsense_Mutation_p.E248*|DFFB_uc001ald.2_Nonsense_Mutation_p.E233*	NM_004402	NP_004393	O76075	DFFB_HUMAN	DNA fragmentation factor, 40 kD, beta	297					apoptotic chromosome condensation|DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction	cytosol|nucleoplasm	deoxyribonuclease activity|enzyme binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;2.05e-30)|all_epithelial(116;6.22e-21)|all_lung(118;2.65e-08)|Lung NSC(185;6.25e-06)|Breast(487;0.000659)|Renal(390;0.00121)|all_neural(13;0.0019)|Hepatocellular(190;0.00705)|Colorectal(325;0.0113)|all_hematologic(16;0.0194)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0548)|Medulloblastoma(700;0.211)		Epithelial(90;1.18e-39)|OV - Ovarian serous cystadenocarcinoma(86;7.28e-23)|GBM - Glioblastoma multiforme(42;2.95e-17)|Colorectal(212;1.23e-05)|COAD - Colon adenocarcinoma(227;5.94e-05)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00038)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		TTTTACCTCAGAGAACCTAAA	0.443													5	93	---	---	---	---	PASS
ANGPTL7	10218	broad.mit.edu	37	1	11249665	11249665	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:11249665C>A	uc001ase.2	+	1	268	c.29C>A	c.(28-30)ACC>AAC	p.T10N	MTOR_uc001asd.2_Intron	NM_021146	NP_066969	O43827	ANGL7_HUMAN	angiopoietin-like 7 precursor	10					response to oxidative stress|signal transduction	extracellular region	receptor binding				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000818)|all_lung(284;0.00105)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.39e-06)|COAD - Colon adenocarcinoma(227;0.000244)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0487)		TCAGCTGTGACCTGGCTCTGC	0.557													49	44	---	---	---	---	PASS
MTHFR	4524	broad.mit.edu	37	1	11861293	11861293	+	Missense_Mutation	SNP	G	A	A	rs45550133		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:11861293G>A	uc001atc.1	-	3	584	c.400C>T	c.(400-402)CGC>TGC	p.R134C	MTHFR_uc001atb.1_Missense_Mutation_p.R157C	NM_005957	NP_005948	P42898	MTHR_HUMAN	5,10-methylenetetrahydrofolate reductase	134					blood circulation|folic acid metabolic process	cytosol	methylenetetrahydrofolate reductase (NADPH) activity|protein binding				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)	Benazepril(DB00542)|Cyanocobalamin(DB00115)|Folic Acid(DB00158)|L-Methionine(DB00134)|Menadione(DB00170)|Methotrexate(DB00563)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|Raltitrexed(DB00293)|Riboflavin(DB00140)|S-Adenosylmethionine(DB00118)|Tetrahydrofolic acid(DB00116)	TCCTCCAGGCGCTGACGGCAG	0.617													31	8	---	---	---	---	PASS
PHC2	1912	broad.mit.edu	37	1	33790576	33790576	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:33790576C>G	uc001bxg.1	-	14	2521	c.2467G>C	c.(2467-2469)GGG>CGG	p.G823R	PHC2_uc001bxh.1_Missense_Mutation_p.G795R|PHC2_uc009vuh.1_Missense_Mutation_p.G824R|PHC2_uc001bxe.1_Missense_Mutation_p.G288R|PHC2_uc001bxf.1_3'UTR	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	823	SAM.				multicellular organismal development	PcG protein complex	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AGGGCTTGCCCGTCGATTTCC	0.592													6	5	---	---	---	---	PASS
MACF1	23499	broad.mit.edu	37	1	39797468	39797468	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:39797468G>T	uc010oiu.1	+	1	659	c.528G>T	c.(526-528)GGG>GGT	p.G176G	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1741					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TGGCAGGGGGGATGGTGAGCT	0.493													22	11	---	---	---	---	PASS
PTPRF	5792	broad.mit.edu	37	1	44071241	44071241	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:44071241G>T	uc001cjr.2	+	19	3771	c.3431G>T	c.(3430-3432)GGG>GTG	p.G1144V	PTPRF_uc001cjs.2_Missense_Mutation_p.G1135V|PTPRF_uc001cju.2_Missense_Mutation_p.G522V|PTPRF_uc009vwt.2_Missense_Mutation_p.G704V|PTPRF_uc001cjv.2_Missense_Mutation_p.G604V|PTPRF_uc001cjw.2_Missense_Mutation_p.G370V	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1144	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CGTGTGGGCGGGAGCATGCTG	0.627													14	9	---	---	---	---	PASS
TAL1	6886	broad.mit.edu	37	1	47685806	47685806	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:47685806G>T	uc001cqx.2	-	4	1159	c.582C>A	c.(580-582)AGC>AGA	p.S194R	TAL1_uc009vyq.2_5'UTR|TAL1_uc001cqy.2_Missense_Mutation_p.S194R	NM_003189	NP_003180	P17542	TAL1_HUMAN	T-cell acute lymphocytic leukemia 1	194	Basic motif.				basophil differentiation|cell fate commitment|cell proliferation|embryonic hemopoiesis|erythrocyte differentiation|megakaryocyte differentiation|positive regulation of cell division|positive regulation of chromatin assembly or disassembly|positive regulation of erythrocyte differentiation|positive regulation of mitotic cell cycle|positive regulation of protein complex assembly|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	E-box binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity			lung(1)	1						ATCGCTCCCGGCTGTTGGTGA	0.562			T	TRD@|SIL	lymphoblastic leukemia/biphasic								21	7	---	---	---	---	PASS
EPS8L3	79574	broad.mit.edu	37	1	110302413	110302413	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:110302413C>A	uc001dyr.1	-	4	287	c.142G>T	c.(142-144)GAG>TAG	p.E48*	EPS8L3_uc001dys.1_Nonsense_Mutation_p.E48*|EPS8L3_uc001dyq.1_Nonsense_Mutation_p.E48*|EPS8L3_uc009wfm.1_Nonsense_Mutation_p.E14*|EPS8L3_uc009wfn.1_Nonsense_Mutation_p.E14*|EPS8L3_uc009wfo.1_Intron	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	48						cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		AAGGCATCCTCGGGCCCCTGG	0.612													4	32	---	---	---	---	PASS
OVGP1	5016	broad.mit.edu	37	1	111963989	111963989	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:111963989T>A	uc001eba.2	-	8	868	c.812A>T	c.(811-813)AAA>ATA	p.K271I	OVGP1_uc001eaz.2_Missense_Mutation_p.K233I|OVGP1_uc010owb.1_Intron	NM_002557	NP_002548	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1 precursor	271					chitin catabolic process|female pregnancy|single fertilization	transport vesicle	cation binding|chitinase activity	p.K271fs*4(1)		ovary(4)|large_intestine(1)	5		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)		CTTAGAGGCTTTGAGGAGGCG	0.517													36	19	---	---	---	---	PASS
SYCP1	6847	broad.mit.edu	37	1	115524061	115524061	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:115524061T>A	uc001efr.2	+	29	2696	c.2487T>A	c.(2485-2487)CAT>CAA	p.H829Q	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.H829Q|SYCP1_uc009wgw.2_Missense_Mutation_p.H804Q	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	829					cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CAGTTGATCATGGCATATCCA	0.333													27	7	---	---	---	---	PASS
ITGA10	8515	broad.mit.edu	37	1	145534248	145534248	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:145534248C>A	uc001eoa.2	+	14	1829	c.1753C>A	c.(1753-1755)CAT>AAT	p.H585N	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.H454N|ITGA10_uc009wiw.2_Missense_Mutation_p.H442N|ITGA10_uc010oyw.1_Missense_Mutation_p.H530N	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	585	Extracellular (Potential).|FG-GAP 6.				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GTACCTGTACCATGGAACCCA	0.567													5	95	---	---	---	---	PASS
CD160	11126	broad.mit.edu	37	1	145706688	145706688	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:145706688C>G	uc001eol.1	-	3	289	c.71G>C	c.(70-72)GGT>GCT	p.G24A	NBPF10_uc001emp.3_Intron|CD160_uc001eom.1_Missense_Mutation_p.G24A|CD160_uc010oyz.1_RNA	NM_007053	NP_008984	O95971	BY55_HUMAN	CD160 antigen precursor	24					cell proliferation|cell surface receptor linked signaling pathway|cellular defense response|regulation of immune response	anchored to plasma membrane	MHC class I receptor activity|receptor binding				0	all_hematologic(18;0.00473)|Acute lymphoblastic leukemia(18;0.0786)		KIRC - Kidney renal clear cell carcinoma(6;0.0764)|Kidney(552;0.118)|Colorectal(543;0.229)			ATCCTCACCACCAGACTGGAT	0.587													16	49	---	---	---	---	PASS
TCHHL1	126637	broad.mit.edu	37	1	152059147	152059147	+	Silent	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:152059147T>C	uc001ezo.1	-	3	1076	c.1011A>G	c.(1009-1011)GGA>GGG	p.G337G		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	337							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			CAGCATCCTTTCCTGGTTCTT	0.448													49	163	---	---	---	---	PASS
FCRL4	83417	broad.mit.edu	37	1	157548310	157548310	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:157548310C>T	uc001fqw.2	-	10	1519	c.1383G>A	c.(1381-1383)TTG>TTA	p.L461L	FCRL4_uc010phy.1_RNA	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	461	Cytoplasmic (Potential).|ITIM motif 2.					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				CAGAGTATACCAAATCTCCCT	0.393													7	46	---	---	---	---	PASS
OR10J1	26476	broad.mit.edu	37	1	159409849	159409849	+	Nonsense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:159409849C>T	uc010piv.1	+	1	301	c.301C>T	c.(301-303)CAG>TAG	p.Q101*	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	101	Extracellular (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					AGGTATGAGCCAGCCCATATC	0.478													13	47	---	---	---	---	PASS
KCNJ10	3766	broad.mit.edu	37	1	160012156	160012156	+	Nonsense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:160012156C>T	uc001fuw.1	-	2	317	c.167G>A	c.(166-168)TGG>TAG	p.W56*		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	56	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GAAGGTTGTCCACAGGTCCTT	0.542													26	107	---	---	---	---	PASS
B4GALT3	8703	broad.mit.edu	37	1	161143746	161143746	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:161143746C>T	uc001fyq.1	-	5	845	c.583G>A	c.(583-585)GAT>AAT	p.D195N	PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Intron|B4GALT3_uc001fyo.1_5'UTR|B4GALT3_uc001fyp.1_RNA|B4GALT3_uc001fyr.1_Missense_Mutation_p.D195N|B4GALT3_uc001fys.1_Missense_Mutation_p.D195N|B4GALT3_uc009wud.1_Missense_Mutation_p.D195N	NM_003779	NP_003770	O60512	B4GT3_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	195	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|metal ion binding|N-acetyllactosamine synthase activity				0	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)		N-Acetyl-D-glucosamine(DB00141)	AGGTCCACATCGTGCAAGAAC	0.522													17	43	---	---	---	---	PASS
TADA1	117143	broad.mit.edu	37	1	166829516	166829516	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:166829516C>T	uc001gdw.2	-	6	783	c.599G>A	c.(598-600)CGA>CAA	p.R200Q	TADA1_uc001gdv.2_Missense_Mutation_p.R58Q	NM_053053	NP_444281	Q96BN2	TADA1_HUMAN	transcriptional adaptor 1-like	200					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(1)	1						ATGACCATCTCGTAACCGATA	0.363													17	30	---	---	---	---	PASS
SLC19A2	10560	broad.mit.edu	37	1	169439384	169439384	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:169439384C>A	uc001gge.3	-	3	1052	c.848G>T	c.(847-849)TGG>TTG	p.W283L	SLC19A2_uc001ggf.3_Missense_Mutation_p.W82L	NM_006996	NP_008927	O60779	S19A2_HUMAN	solute carrier family 19, member 2	283	Cytoplasmic (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|folic acid transporter activity|reduced folate carrier activity|thiamine uptake transmembrane transporter activity				0	all_hematologic(923;0.208)					GAAATCATTCCATAGTACTTT	0.448													5	56	---	---	---	---	PASS
SCYL3	57147	broad.mit.edu	37	1	169823643	169823643	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:169823643G>C	uc001ggs.2	-	13	2135	c.1937C>G	c.(1936-1938)CCC>CGC	p.P646R	SCYL3_uc010plw.1_Missense_Mutation_p.P238R|SCYL3_uc001ggt.2_Missense_Mutation_p.P592R|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	646	Interaction with EZR.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AACCTTAAGGGGCCTTTCTTG	0.438													18	86	---	---	---	---	PASS
BAT2L2	23215	broad.mit.edu	37	1	171510347	171510347	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:171510347A>T	uc010pmg.1	+	16	4002	c.3736A>T	c.(3736-3738)AGT>TGT	p.S1246C	BAT2L2_uc010pmh.1_Missense_Mutation_p.S223C	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	1246							protein C-terminus binding				0						TGAAACACGGAGTGAGAGCTC	0.473													56	45	---	---	---	---	PASS
BAT2L2	23215	broad.mit.edu	37	1	171511306	171511306	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:171511306G>T	uc010pmg.1	+	16	4961	c.4695G>T	c.(4693-4695)AGG>AGT	p.R1565S	BAT2L2_uc010pmh.1_Missense_Mutation_p.R542S	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	1565							protein C-terminus binding				0						AATCAGGAAGGAATTTCTCAG	0.428													19	7	---	---	---	---	PASS
PAPPA2	60676	broad.mit.edu	37	1	176564385	176564385	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:176564385C>A	uc001gkz.2	+	3	2809	c.1645C>A	c.(1645-1647)CTG>ATG	p.L549M	PAPPA2_uc001gky.1_Missense_Mutation_p.L549M|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	549	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GCAGATTCGTCTGCAGCACGA	0.567													10	42	---	---	---	---	PASS
PAPPA2	60676	broad.mit.edu	37	1	176564722	176564722	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:176564722C>A	uc001gkz.2	+	3	3146	c.1982C>A	c.(1981-1983)TCA>TAA	p.S661*	PAPPA2_uc001gky.1_Nonsense_Mutation_p.S661*|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	661	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GACCCTGACTCACCCAAGAGG	0.498													4	29	---	---	---	---	PASS
PAPPA2	60676	broad.mit.edu	37	1	176769217	176769217	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:176769217G>A	uc001gkz.2	+	21	6315	c.5151G>A	c.(5149-5151)CGG>CGA	p.R1717R	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1717	Sushi 5.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GCACTGGCCGGCGTCAATGGC	0.498													34	79	---	---	---	---	PASS
PRG4	10216	broad.mit.edu	37	1	186277488	186277488	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:186277488G>A	uc001gru.3	+	7	2688	c.2637G>A	c.(2635-2637)GAG>GAA	p.E879E	PRG4_uc001grt.3_Silent_p.E838E|PRG4_uc009wyl.2_Silent_p.E786E|PRG4_uc009wym.2_Silent_p.E745E|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	879					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CAACTCCTGAGCTTTCTGCAG	0.488													165	116	---	---	---	---	PASS
CFHR4	10877	broad.mit.edu	37	1	196881962	196881962	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:196881962T>A	uc001gto.2	+	3	418	c.349T>A	c.(349-351)TGT>AGT	p.C117S	CFHR4_uc009wyy.2_Missense_Mutation_p.C363S|CFHR4_uc001gtp.2_Missense_Mutation_p.C364S	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	117	Sushi 2.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						acaatataaatGTAAACCAGG	0.279													26	54	---	---	---	---	PASS
FAM58B	339521	broad.mit.edu	37	1	200183331	200183331	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:200183331G>T	uc009wzi.1	+	1	676	c.640G>T	c.(640-642)GAG>TAG	p.E214*		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	214					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					GGTGCCCGCCGAGGTCGAGGC	0.562													4	69	---	---	---	---	PASS
CNTN2	6900	broad.mit.edu	37	1	205034927	205034927	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:205034927T>A	uc001hbr.2	+	14	1975	c.1706T>A	c.(1705-1707)ATT>AAT	p.I569N	CNTN2_uc001hbq.1_Missense_Mutation_p.I460N|CNTN2_uc001hbs.2_Missense_Mutation_p.I357N	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	569	Ig-like C2-type 6.				axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	all_cancers(21;0.144)|Breast(84;0.0437)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			AAGGAGACCATTGGGGATCTG	0.637													11	36	---	---	---	---	PASS
CR2	1380	broad.mit.edu	37	1	207639950	207639950	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:207639950G>A	uc001hfw.2	+	2	232	c.138G>A	c.(136-138)GTG>GTA	p.V46V	CR2_uc001hfv.2_Silent_p.V46V|CR2_uc009xch.2_Silent_p.V46V	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	46	Sushi 1.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TTGGTACCGTGATAAGGTACA	0.433													8	127	---	---	---	---	PASS
EPRS	2058	broad.mit.edu	37	1	220153567	220153567	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:220153567C>G	uc001hly.1	-	26	3841	c.3571G>C	c.(3571-3573)GAC>CAC	p.D1191H		NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	1191	Prolyl-tRNA synthetase.				glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	GCATATAAGTCAAGTATCTGC	0.328													42	34	---	---	---	---	PASS
DUSP10	11221	broad.mit.edu	37	1	221912353	221912353	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:221912353C>A	uc001hmy.1	-	2	916	c.734G>T	c.(733-735)CGA>CTA	p.R245L	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	245	Rhodanese.				inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		GGGCATCACTCGGCTTGGTTC	0.468													4	106	---	---	---	---	PASS
HHIPL2	79802	broad.mit.edu	37	1	222717398	222717398	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:222717398G>A	uc001hnh.1	-	2	513	c.455C>T	c.(454-456)ACC>ATC	p.T152I		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	152					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		GCGGTCATTGGTCAGCAGGGA	0.572													13	91	---	---	---	---	PASS
VN1R5	317705	broad.mit.edu	37	1	247420126	247420126	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:247420126T>A	uc010pyu.1	+	2	753	c.753T>A	c.(751-753)AGT>AGA	p.S251R		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	251	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			GCTATCTCAGTGCCTTCACAC	0.468													25	90	---	---	---	---	PASS
OR2T33	391195	broad.mit.edu	37	1	248436684	248436684	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:248436684A>G	uc010pzi.1	-	1	433	c.433T>C	c.(433-435)TCG>CCG	p.S145P		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	145	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AGCCAACACGACATGGTCATC	0.577													43	116	---	---	---	---	PASS
OR14C36	127066	broad.mit.edu	37	1	248512734	248512734	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:248512734T>A	uc010pzl.1	+	1	658	c.658T>A	c.(658-660)TTT>ATT	p.F220I		NM_001001918	NP_001001918	Q8NHC7	O14CZ_HUMAN	olfactory receptor, family 14, subfamily C,	220	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						CATTCACATCTTTTCGACCGT	0.498													18	59	---	---	---	---	PASS
OR14I1	401994	broad.mit.edu	37	1	248845378	248845378	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:248845378C>A	uc001ieu.1	-	1	228	c.228G>T	c.(226-228)GTG>GTT	p.V76V		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	76	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGGATTTAGGCACAGTGACTG	0.473													11	38	---	---	---	---	PASS
SMC6	79677	broad.mit.edu	37	2	17906556	17906556	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:17906556T>C	uc002rco.2	-	9	990	c.694A>G	c.(694-696)AGA>GGA	p.R232G	SMC6_uc010exo.2_Missense_Mutation_p.R232G|SMC6_uc002rcn.2_Missense_Mutation_p.R232G|SMC6_uc002rcp.1_Missense_Mutation_p.R258G|SMC6_uc002rcq.2_Missense_Mutation_p.R258G|SMC6_uc002rcr.1_Missense_Mutation_p.R232G	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	232	Potential.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TCCTTTGTTCTTTCTTTCGTT	0.303													26	28	---	---	---	---	PASS
APOB	338	broad.mit.edu	37	2	21232746	21232746	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:21232746C>T	uc002red.2	-	26	7122	c.6994G>A	c.(6994-6996)GAG>AAG	p.E2332K		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2332					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTGATTTTCTCAGCTACTTCA	0.343													13	84	---	---	---	---	PASS
DPYSL5	56896	broad.mit.edu	37	2	27121593	27121593	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:27121593G>T	uc002rhu.3	+	2	384	c.226G>T	c.(226-228)GCC>TCC	p.A76S	DPYSL5_uc002rhv.3_Missense_Mutation_p.A76S	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	76					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTCATGAATGCCACGTGCGT	0.537													14	40	---	---	---	---	PASS
C2orf16	84226	broad.mit.edu	37	2	27800671	27800671	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:27800671T>A	uc002rkz.3	+	1	1283	c.1232T>A	c.(1231-1233)CTA>CAA	p.L411Q		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	411										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					AAGCAATGGCTACAAATGGAG	0.468													16	68	---	---	---	---	PASS
C2orf16	84226	broad.mit.edu	37	2	27801331	27801331	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:27801331G>A	uc002rkz.3	+	1	1943	c.1892G>A	c.(1891-1893)TGT>TAT	p.C631Y		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	631										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					GCAATAAATTGTGTGGATTTA	0.408													54	22	---	---	---	---	PASS
GPN1	11321	broad.mit.edu	37	2	27852010	27852010	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:27852010G>T	uc010ymc.1	+	1	148	c.127G>T	c.(127-129)GGA>TGA	p.G43*	ZNF512_uc010yly.1_Intron|CCDC121_uc010eze.2_5'Flank|CCDC121_uc002rld.2_5'Flank|CCDC121_uc002rle.2_5'Flank|GPN1_uc010ezf.2_Intron|GPN1_uc010yma.1_Intron|GPN1_uc010ymb.1_Intron|GPN1_uc010ymd.1_5'UTR|GPN1_uc010yme.1_Nonsense_Mutation_p.G43*|GPN1_uc010ezg.1_5'Flank	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	29	GTP (Pootential).					cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						GGGAATGGCGGGATCCGGGAA	0.622													8	38	---	---	---	---	PASS
SLC4A1AP	22950	broad.mit.edu	37	2	27887973	27887973	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:27887973G>T	uc002rlk.3	+	2	1114	c.832G>T	c.(832-834)GAG>TAG	p.E278*	SUPT7L_uc002rlh.1_5'Flank|SUPT7L_uc002rli.1_5'Flank|SUPT7L_uc010ymf.1_5'Flank|SUPT7L_uc002rlj.1_5'Flank|SUPT7L_uc010ezh.1_5'Flank	NM_018158	NP_060628	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger),	278						cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)					TCAGGGACCAGAGGAAGACCG	0.294													7	135	---	---	---	---	PASS
PLEKHH2	130271	broad.mit.edu	37	2	43927638	43927638	+	Missense_Mutation	SNP	A	G	G	rs144437669		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:43927638A>G	uc010yny.1	+	8	1624	c.1541A>G	c.(1540-1542)TAT>TGT	p.Y514C	PLEKHH2_uc002rte.3_Missense_Mutation_p.Y514C|PLEKHH2_uc002rtf.3_Missense_Mutation_p.Y513C	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	514						cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TTATTTTCCTATGACTCCTTG	0.448													22	124	---	---	---	---	PASS
MSH6	2956	broad.mit.edu	37	2	48027187	48027187	+	Missense_Mutation	SNP	T	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:48027187T>G	uc002rwd.3	+	4	2217	c.2065T>G	c.(2065-2067)TTC>GTC	p.F689V	MSH6_uc002rwc.2_Missense_Mutation_p.F689V|MSH6_uc010fbj.2_Missense_Mutation_p.F387V|MSH6_uc010yoi.1_Missense_Mutation_p.F559V|MSH6_uc010yoj.1_Missense_Mutation_p.F387V	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	689					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TGGTTGTGTCTTCTACCTCAA	0.423			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				42	152	---	---	---	---	PASS
FANCL	55120	broad.mit.edu	37	2	58392929	58392929	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:58392929G>T	uc002rzw.3	-	8	688	c.621C>A	c.(619-621)ATC>ATA	p.I207I	FANCL_uc002rzx.3_Silent_p.I212I|FANCL_uc010fce.2_Silent_p.I207I|FANCL_uc010fcf.1_Silent_p.I148I	NM_018062	NP_060532	Q9NW38	FANCL_HUMAN	Fanconi anemia, complementation group L isoform	207					DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TCTTCTCATCGATTTCATCCA	0.408								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				52	25	---	---	---	---	PASS
C2orf86	51057	broad.mit.edu	37	2	63720003	63720003	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:63720003G>T	uc002sch.2	-	2	593	c.147C>A	c.(145-147)ACC>ACA	p.T49T	C2orf86_uc002sci.1_Silent_p.T25T	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	49					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						CAATGTGTAAGGTATTCTTCA	0.348													8	235	---	---	---	---	PASS
DYSF	8291	broad.mit.edu	37	2	71883310	71883310	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:71883310G>T	uc002sie.2	+	42	4904	c.4528G>T	c.(4528-4530)GAG>TAG	p.E1510*	DYSF_uc010feg.2_Nonsense_Mutation_p.E1541*|DYSF_uc010feh.2_Nonsense_Mutation_p.E1517*|DYSF_uc002sig.3_Nonsense_Mutation_p.E1496*|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Nonsense_Mutation_p.E1531*|DYSF_uc010fef.2_Nonsense_Mutation_p.E1548*|DYSF_uc010fei.2_Nonsense_Mutation_p.E1527*|DYSF_uc010fek.2_Nonsense_Mutation_p.E1528*|DYSF_uc010fej.2_Nonsense_Mutation_p.E1518*|DYSF_uc010fel.2_Nonsense_Mutation_p.E1497*|DYSF_uc010feo.2_Nonsense_Mutation_p.E1542*|DYSF_uc010fem.2_Nonsense_Mutation_p.E1532*|DYSF_uc010fen.2_Nonsense_Mutation_p.E1549*|DYSF_uc002sif.2_Nonsense_Mutation_p.E1511*|DYSF_uc010yqy.1_Nonsense_Mutation_p.E391*|DYSF_uc010yqz.1_Nonsense_Mutation_p.E271*	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1510	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CACACAGCTGGAGAATGTGGA	0.358													7	175	---	---	---	---	PASS
ALMS1	7840	broad.mit.edu	37	2	73762076	73762076	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:73762076G>T	uc002sje.1	+	14	10021	c.9910G>T	c.(9910-9912)GGA>TGA	p.G3304*	ALMS1_uc002sjf.1_Nonsense_Mutation_p.G3260*|ALMS1_uc002sjg.2_Nonsense_Mutation_p.G2690*|ALMS1_uc002sjh.1_Nonsense_Mutation_p.G2690*|ALMS1_uc010fev.1_Missense_Mutation_p.D119Y	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3302					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CTCCCATTCAGGTATTATGCA	0.358													10	233	---	---	---	---	PASS
LRRTM4	80059	broad.mit.edu	37	2	77746050	77746050	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:77746050G>A	uc002snr.2	-	3	1360	c.945C>T	c.(943-945)TGC>TGT	p.C315C	LRRTM4_uc002snq.2_Silent_p.C315C|LRRTM4_uc002sns.2_Silent_p.C315C|LRRTM4_uc002snt.2_Silent_p.C316C	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	315	LRRCT.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TGCTCCGACTGCATTCCCACA	0.393													6	19	---	---	---	---	PASS
LRRTM4	80059	broad.mit.edu	37	2	77746622	77746622	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:77746622G>C	uc002snr.2	-	3	788	c.373C>G	c.(373-375)CAC>GAC	p.H125D	LRRTM4_uc002snq.2_Missense_Mutation_p.H125D|LRRTM4_uc002sns.2_Missense_Mutation_p.H125D|LRRTM4_uc002snt.2_Missense_Mutation_p.H126D	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	125	LRR 3.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GTTTTATTGTGCAGATAAGTA	0.383													15	59	---	---	---	---	PASS
POLR1A	25885	broad.mit.edu	37	2	86292414	86292414	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:86292414G>A	uc002sqs.2	-	14	2420	c.2041C>T	c.(2041-2043)CTG>TTG	p.L681L	POLR1A_uc010ytb.1_Silent_p.L47L	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	681					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CCTGTCCACAGCGGAAAGGGC	0.493													14	114	---	---	---	---	PASS
RMND5A	64795	broad.mit.edu	37	2	86980655	86980655	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:86980655G>T	uc010ytm.1	+	4	872	c.495G>T	c.(493-495)AAG>AAT	p.K165N	RMND5A_uc002srs.3_Intron|RMND5A_uc002srr.2_Missense_Mutation_p.K165N	NM_022780	NP_073617	Q9H871	RMD5A_HUMAN	required for meiotic nuclear division 5 homolog	165	CTLH.									ovary(1)|skin(1)	2						AGGCATTAAAGGTCAGAGTTC	0.368													5	71	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	89160397	89160397	+	RNA	SNP	C	A	A	rs141201227	by1000genomes	TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:89160397C>A	uc010ytr.1	-	239		c.9393G>T			uc002sti.1_5'Flank|uc002stj.1_Intron					Parts of antibodies, mostly variable regions.																		AGTGCACTTACGTTTGATCTC	0.423													103	37	---	---	---	---	PASS
FER1L5	90342	broad.mit.edu	37	2	97370014	97370014	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:97370014G>T	uc010fia.2	+	51	5972	c.5972G>T	c.(5971-5973)TGG>TTG	p.W1991L	FER1L5_uc002sws.3_Missense_Mutation_p.W700L|FER1L5_uc002swt.3_Missense_Mutation_p.W700L|FER1L5_uc010yus.1_Missense_Mutation_p.W699L	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1991						integral to membrane				ovary(1)	1						TATATTTTCTGGAAACGCTAT	0.473													7	147	---	---	---	---	PASS
CNNM4	26504	broad.mit.edu	37	2	97427870	97427870	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:97427870C>A	uc002swx.2	+	1	1232	c.1134C>A	c.(1132-1134)ACC>ACA	p.T378T		NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	378	CBS 1.				biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						ATATCATGACCCAGCTCCAGG	0.522													5	60	---	---	---	---	PASS
MAP4K4	9448	broad.mit.edu	37	2	102314986	102314986	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:102314986G>T	uc002tbg.2	+	2	164	c.109G>T	c.(109-111)GGA>TGA	p.G37*	MAP4K4_uc002tbc.2_Nonsense_Mutation_p.G37*|MAP4K4_uc002tbd.2_Nonsense_Mutation_p.G37*|MAP4K4_uc002tbe.2_Nonsense_Mutation_p.G37*|MAP4K4_uc002tbf.2_Nonsense_Mutation_p.G37*|MAP4K4_uc010yvy.1_Nonsense_Mutation_p.G37*|MAP4K4_uc002tbh.2_Nonsense_Mutation_p.G37*|MAP4K4_uc002tbi.2_Nonsense_Mutation_p.G37*	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	37	Protein kinase.|ATP (By similarity).				intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TGGCACCTATGGACAAGTCTA	0.488													12	492	---	---	---	---	PASS
RANBP2	5903	broad.mit.edu	37	2	109379712	109379712	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:109379712A>G	uc002tem.3	+	20	2843	c.2717A>G	c.(2716-2718)AAT>AGT	p.N906S		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	906					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TATGGCATGAATAGGCTTCCA	0.408													33	51	---	---	---	---	PASS
SAP130	79595	broad.mit.edu	37	2	128767876	128767876	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:128767876G>A	uc002tpp.2	-	7	1046	c.914C>T	c.(913-915)ACG>ATG	p.T305M	SAP130_uc002tpn.2_Missense_Mutation_p.T66M|SAP130_uc002tpo.2_Missense_Mutation_p.T50M|SAP130_uc010fmd.2_Missense_Mutation_p.T305M|SAP130_uc002tpq.1_Missense_Mutation_p.T279M	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	305					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		CGCCGCTGTCGTAGTGATGAC	0.512													47	7	---	---	---	---	PASS
TUBA3D	113457	broad.mit.edu	37	2	132237812	132237812	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:132237812G>T	uc002tsu.3	+	4	653	c.546G>T	c.(544-546)GTG>GTT	p.V182V		NM_080386	NP_525125	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	182					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(221;0.13)		CAGCCGTGGTGGAGCCCTACA	0.552													6	128	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168107064	168107064	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:168107064C>A	uc002udx.2	+	8	9180	c.9162C>A	c.(9160-9162)TCC>TCA	p.S3054S	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.S2879S|XIRP2_uc010fpq.2_Silent_p.S2832S|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2879					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAACATCATCCAAAGTATCTA	0.353													6	133	---	---	---	---	PASS
HOXD10	3236	broad.mit.edu	37	2	176983941	176983941	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:176983941C>A	uc002ukj.2	+	2	1075	c.1005C>A	c.(1003-1005)GCC>GCA	p.A335A		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	335						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		AACTGACCGCCAACCTCACGT	0.463													5	82	---	---	---	---	PASS
NFE2L2	4780	broad.mit.edu	37	2	178098960	178098960	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:178098960C>G	uc002ulh.3	-	2	640	c.85G>C	c.(85-87)GAT>CAT	p.D29H	NFE2L2_uc002ulg.3_Missense_Mutation_p.D13H|NFE2L2_uc010zfa.1_Missense_Mutation_p.D13H|NFE2L2_uc002uli.3_Missense_Mutation_p.D13H|NFE2L2_uc010fra.2_Missense_Mutation_p.D13H|NFE2L2_uc010frb.2_Missense_Mutation_p.D13H	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	29					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			ACTCCAAGATCTATATCTTGC	0.363			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			39	5	---	---	---	---	PASS
TTC30B	150737	broad.mit.edu	37	2	178415699	178415699	+	Nonsense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:178415699G>C	uc002uln.2	-	1	1826	c.1793C>G	c.(1792-1794)TCA>TGA	p.S598*	TTC30B_uc010zfc.1_Nonsense_Mutation_p.S370*	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	598					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			TGTGTGTTTTGACATGTTTTC	0.388													7	165	---	---	---	---	PASS
HECW2	57520	broad.mit.edu	37	2	197157413	197157413	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:197157413C>A	uc002utm.1	-	14	3059	c.2876G>T	c.(2875-2877)AGG>ATG	p.R959M	HECW2_uc002utl.1_Missense_Mutation_p.R603M	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	959	Interaction with TP73.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						GTGGGTGTCCCTCCGGACTTT	0.493													51	4	---	---	---	---	PASS
PLCL1	5334	broad.mit.edu	37	2	198949015	198949015	+	Silent	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:198949015T>C	uc010fsp.2	+	2	1065	c.774T>C	c.(772-774)ATT>ATC	p.I258I	PLCL1_uc002uuv.3_Silent_p.I179I	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	258					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	GGAATGGGATTATGTTGGAAG	0.423													15	114	---	---	---	---	PASS
INHA	3623	broad.mit.edu	37	2	220439980	220439980	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:220439980G>T	uc002vmk.1	+	2	977	c.833G>T	c.(832-834)CGG>CTG	p.R278L		NM_002191	NP_002182	P05111	INHA_HUMAN	inhibin alpha subunit precursor	278					cell cycle arrest|cell surface receptor linked signaling pathway|cell-cell signaling|erythrocyte differentiation|hemoglobin biosynthetic process|induction of apoptosis|negative regulation of B cell differentiation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|regulation of cell proliferation|response to external stimulus|skeletal system development	inhibin A complex|inhibin-betaglycan-ActRII complex	cytokine activity|growth factor activity|hormone activity|signal transducer activity			ovary(1)	1		Renal(207;0.0183)		Epithelial(149;4.58e-07)|all cancers(144;4.31e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		GGCTGGGAACGGTGGATCGTG	0.612													49	6	---	---	---	---	PASS
COL4A3	1285	broad.mit.edu	37	2	228148491	228148491	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr2:228148491G>T	uc002vom.1	+	33	2827	c.2665G>T	c.(2665-2667)GGA>TGA	p.G889*	COL4A3_uc002von.1_Nonsense_Mutation_p.G889*|COL4A3_uc002voo.1_Nonsense_Mutation_p.G889*|COL4A3_uc002vop.1_Nonsense_Mutation_p.G889*|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	889	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		AGGTGAAGATGGAGTGATTGG	0.458													5	71	---	---	---	---	PASS
BTD	686	broad.mit.edu	37	3	15677003	15677003	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:15677003C>T	uc003cah.2	+	2	220	c.117C>T	c.(115-117)GCC>GCT	p.A39A	BTD_uc011avv.1_Silent_p.A41A|BTD_uc011avw.1_Silent_p.A41A|BTD_uc011avx.1_Silent_p.A19A	NM_000060	NP_000051	P43251	BTD_HUMAN	biotinidase precursor	39					central nervous system development|epidermis development|nitrogen compound metabolic process	extracellular space	biotin carboxylase activity|biotinidase activity				0						ACGTGGTTGCCCTGGGAGCCC	0.537													6	59	---	---	---	---	PASS
KCNH8	131096	broad.mit.edu	37	3	19554758	19554758	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:19554758G>T	uc003cbk.1	+	13	2571	c.2376G>T	c.(2374-2376)AAG>AAT	p.K792N	KCNH8_uc010hex.1_Missense_Mutation_p.K253N	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	792	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						GGAAAGAGAAGAACTTGAAAT	0.448													19	28	---	---	---	---	PASS
BSN	8927	broad.mit.edu	37	3	49692819	49692819	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:49692819C>T	uc003cxe.3	+	5	5944	c.5830C>T	c.(5830-5832)CCC>TCC	p.P1944S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1944					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CTTCTATGGTCCCCGGGACCC	0.687													7	12	---	---	---	---	PASS
SLMAP	7871	broad.mit.edu	37	3	57908716	57908716	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:57908716A>G	uc003dje.1	+	21	2565	c.2360A>G	c.(2359-2361)AAC>AGC	p.N787S	SLMAP_uc003djd.1_Missense_Mutation_p.N770S|SLMAP_uc003djf.1_Missense_Mutation_p.N749S|SLMAP_uc003djg.1_Missense_Mutation_p.N381S|SLMAP_uc011bez.1_Missense_Mutation_p.N255S|SLMAP_uc011bfa.1_Missense_Mutation_p.N321S|SLMAP_uc003dji.1_Missense_Mutation_p.N321S|SLMAP_uc011bfb.1_Missense_Mutation_p.N321S|SLMAP_uc011bfc.1_Missense_Mutation_p.N280S	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	787	Cytoplasmic (Potential).|Potential.				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		CAGTGTAAAAACAACCTGAAG	0.383													49	13	---	---	---	---	PASS
FLNB	2317	broad.mit.edu	37	3	58089694	58089694	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:58089694G>T	uc003djj.2	+	10	1657	c.1492G>T	c.(1492-1494)GAG>TAG	p.E498*	FLNB_uc010hne.2_Nonsense_Mutation_p.E498*|FLNB_uc003djk.2_Nonsense_Mutation_p.E498*|FLNB_uc010hnf.2_Nonsense_Mutation_p.E498*|FLNB_uc003djl.2_Nonsense_Mutation_p.E329*|FLNB_uc003djm.2_Nonsense_Mutation_p.E329*	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	498	Filamin 3.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		AGAGGGTCTGGAGGAGCTGGT	0.517													5	47	---	---	---	---	PASS
MINA	84864	broad.mit.edu	37	3	97664061	97664061	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:97664061G>T	uc003drz.1	-	10	1871	c.1365C>A	c.(1363-1365)TCC>TCA	p.S455S	MINA_uc003dry.1_Silent_p.S126S|MINA_uc003dsa.1_Silent_p.S454S|MINA_uc003dsb.1_Silent_p.S455S|MINA_uc003dsc.1_Silent_p.S454S	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	455					ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						CTGTCCAGAGGGATAATACCA	0.373													12	176	---	---	---	---	PASS
TMEM45A	55076	broad.mit.edu	37	3	100295772	100295772	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:100295772G>T	uc003dtz.1	+	6	1051	c.738G>T	c.(736-738)TTG>TTT	p.L246F	TMEM45A_uc003dua.1_Missense_Mutation_p.L262F|TMEM45A_uc003dub.1_RNA	NM_018004	NP_060474	Q9NWC5	TM45A_HUMAN	transmembrane protein 45A	246						integral to membrane				skin(2)|ovary(1)	3						TCCTCAGGTTGGTTAAATCTA	0.383													6	87	---	---	---	---	PASS
CEP97	79598	broad.mit.edu	37	3	101476034	101476034	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:101476034G>A	uc003dvk.1	+	8	1048	c.1021G>A	c.(1021-1023)GAA>AAA	p.E341K	CEP97_uc010hpm.1_Missense_Mutation_p.E307K|CEP97_uc011bhf.1_Missense_Mutation_p.E341K|CEP97_uc003dvl.1_Missense_Mutation_p.E37K|CEP97_uc003dvm.1_Missense_Mutation_p.E179K	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	341	CEP110 binding.					centrosome|nucleus	protein binding			ovary(2)	2						GATATCCCAGGAAAGTGGTAA	0.378													5	93	---	---	---	---	PASS
MYH15	22989	broad.mit.edu	37	3	108175659	108175659	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:108175659G>T	uc003dxa.1	-	20	2209	c.2152C>A	c.(2152-2154)CGT>AGT	p.R718S		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	718	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						AAACCTTCACGGCATATCCTA	0.433													60	121	---	---	---	---	PASS
BOC	91653	broad.mit.edu	37	3	112993496	112993496	+	Silent	SNP	G	C	C	rs139797362		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:112993496G>C	uc003dzx.2	+	9	2130	c.1509G>C	c.(1507-1509)GCG>GCC	p.A503A	BOC_uc003dzy.2_Silent_p.A503A|BOC_uc003dzz.2_Silent_p.A503A|BOC_uc003eab.2_Silent_p.A204A	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	503	Fibronectin type-III 1.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			GTGGCCGGGCGCCAATCCTCT	0.632													8	28	---	---	---	---	PASS
DRD3	1814	broad.mit.edu	37	3	113858465	113858465	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:113858465C>A	uc003ebd.2	-	6	1028	c.605G>T	c.(604-606)GGA>GTA	p.G202V	DRD3_uc010hqn.1_Missense_Mutation_p.G202V|DRD3_uc003ebb.1_Missense_Mutation_p.G202V|DRD3_uc003ebc.1_Missense_Mutation_p.G202V	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	202	Helical; Name=5.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	GACAGTCACTCCAAAGGGCAG	0.512													62	147	---	---	---	---	PASS
GOLGB1	2804	broad.mit.edu	37	3	121410336	121410336	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:121410336G>T	uc003eei.3	-	14	7986	c.7860C>A	c.(7858-7860)GCC>GCA	p.A2620A	GOLGB1_uc010hrc.2_Silent_p.A2625A|GOLGB1_uc003eej.3_Silent_p.A2586A	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	2620	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTTCTTGCAAGGCTGTTACTT	0.378													7	106	---	---	---	---	PASS
GOLGB1	2804	broad.mit.edu	37	3	121417435	121417435	+	Silent	SNP	C	A	A	rs112783488	byFrequency	TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:121417435C>A	uc003eei.3	-	13	2046	c.1920G>T	c.(1918-1920)GCG>GCT	p.A640A	GOLGB1_uc010hrc.2_Silent_p.A645A|GOLGB1_uc003eej.3_Silent_p.A606A|GOLGB1_uc011bjm.1_Silent_p.A526A|GOLGB1_uc010hrd.1_Silent_p.A604A	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	640	Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		GTTCAGTGCTCGCCTGTTCTT	0.373													6	102	---	---	---	---	PASS
CD86	942	broad.mit.edu	37	3	121825266	121825266	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:121825266C>A	uc003eet.2	+	4	738	c.622C>A	c.(622-624)CCT>ACT	p.P208T	CD86_uc011bjo.1_Missense_Mutation_p.P126T|CD86_uc011bjp.1_Missense_Mutation_p.P96T|CD86_uc003eeu.2_Missense_Mutation_p.P202T	NM_175862	NP_787058	P42081	CD86_HUMAN	CD86 antigen isoform 1	208	Ig-like C2-type.|Extracellular (Potential).				interspecies interaction between organisms|positive regulation of cell proliferation|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of lymphotoxin A biosynthetic process|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation		coreceptor activity|protein binding			pancreas(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.156)	Abatacept(DB01281)	TGTTTCATTCCCTGATGTTAC	0.393													9	220	---	---	---	---	PASS
MCM2	4171	broad.mit.edu	37	3	127337913	127337913	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:127337913A>T	uc003ejp.2	+	13	2114	c.2057A>T	c.(2056-2058)CAC>CTC	p.H686L	MCM2_uc011bkm.1_Missense_Mutation_p.H556L|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.H639L	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	686					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CACGTCAGACACCACCCCAGC	0.647													11	6	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	3	129130176	129130176	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:129130176C>G	uc003emg.2	-	5	1023	c.860G>C	c.(859-861)AGA>ACA	p.R287T		NM_207307	NP_997190			hypothetical protein LOC90288																		CAGGGAATCTCTGTGCTTGGC	0.557													63	44	---	---	---	---	PASS
DNAJC13	23317	broad.mit.edu	37	3	132169490	132169490	+	Splice_Site	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:132169490G>C	uc003eor.2	+	6	402	c.337_splice	c.e6-1	p.R113_splice	DNAJC13_uc010htq.1_Splice_Site_p.R113_splice	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13								heat shock protein binding			ovary(1)|breast(1)	2						TCTGTCTTTAGAGATACAACT	0.313													14	45	---	---	---	---	PASS
A4GNT	51146	broad.mit.edu	37	3	137849890	137849890	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:137849890G>T	uc003ers.2	-	2	411	c.209C>A	c.(208-210)TCC>TAC	p.S70Y		NM_016161	NP_057245	Q9UNA3	A4GCT_HUMAN	alpha-1,4-N-acetylglucosaminyltransferase	70	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	acetylglucosaminyltransferase activity|galactosyltransferase activity			central_nervous_system(1)	1						AGACTCTACGGAACAGGAGAC	0.527													7	138	---	---	---	---	PASS
MRAS	22808	broad.mit.edu	37	3	138119441	138119441	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:138119441C>A	uc003esh.3	+	5	1074	c.513C>A	c.(511-513)CTC>CTA	p.L171L	MRAS_uc011bmi.1_Silent_p.L95L|MRAS_uc003esi.3_Silent_p.L171L|MRAS_uc011bmj.1_Silent_p.L95L	NM_012219	NP_036351	O14807	RASM_HUMAN	muscle RAS oncogene homolog precursor	171					actin cytoskeleton organization|muscle organ development|Ras protein signal transduction	intracellular|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity			lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TCCATGACCTCGTTAGAGTAA	0.542													6	239	---	---	---	---	PASS
SI	6476	broad.mit.edu	37	3	164760854	164760854	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:164760854C>G	uc003fei.2	-	17	2059	c.1997G>C	c.(1996-1998)GGA>GCA	p.G666A		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	666	Lumenal.|Isomaltase.				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)	TACTTCATATCCGTCAGAATT	0.353										HNSCC(35;0.089)			7	204	---	---	---	---	PASS
SI	6476	broad.mit.edu	37	3	164793766	164793766	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:164793766G>C	uc003fei.2	-	2	97	c.35C>G	c.(34-36)TCT>TGT	p.S12C		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	12	Cytoplasmic.				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)	GACAATCAGAGAGATTTCCAA	0.264										HNSCC(35;0.089)			112	12	---	---	---	---	PASS
SLITRK3	22865	broad.mit.edu	37	3	164907978	164907978	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:164907978C>A	uc003fej.3	-	2	1085	c.641G>T	c.(640-642)CGA>CTA	p.R214L	SLITRK3_uc003fek.2_Missense_Mutation_p.R214L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	214	Extracellular (Potential).|LRR 6.					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						TAGCATTCCTCGGTAAAAAAG	0.418										HNSCC(40;0.11)			5	171	---	---	---	---	PASS
PHC3	80012	broad.mit.edu	37	3	169846536	169846536	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:169846536G>C	uc010hws.1	-	8	1752	c.1688C>G	c.(1687-1689)CCT>CGT	p.P563R	PHC3_uc003fgl.2_Missense_Mutation_p.P575R|PHC3_uc011bpq.1_Missense_Mutation_p.P522R|PHC3_uc011bpr.1_Missense_Mutation_p.P489R	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	563	Pro-rich.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			CTGTGGAGGAGGAAGAGTCTG	0.502													334	65	---	---	---	---	PASS
PHC3	80012	broad.mit.edu	37	3	169896648	169896648	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:169896648G>T	uc010hws.1	-	2	121	c.57C>A	c.(55-57)ACC>ACA	p.T19T	PHC3_uc003fgl.2_Silent_p.T31T|PHC3_uc011bpq.1_Silent_p.T31T|PHC3_uc011bpr.1_Silent_p.T31T|PHC3_uc003fgm.2_Silent_p.T31T|PHC3_uc003fgo.1_Silent_p.T19T|PHC3_uc003fgp.3_Silent_p.T31T|PHC3_uc003fgq.3_Silent_p.T31T|PHC3_uc003fgr.1_RNA	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	19	Poly-Thr.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			tggtggtggtggtACTGCTGG	0.418													11	656	---	---	---	---	PASS
SKIL	6498	broad.mit.edu	37	3	170078995	170078995	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:170078995G>T	uc003fgu.2	+	2	1588	c.876G>T	c.(874-876)CTG>CTT	p.L292L	SKIL_uc011bps.1_Silent_p.L272L|SKIL_uc003fgv.2_Silent_p.L292L|SKIL_uc003fgw.2_Silent_p.L292L	NM_005414	NP_005405	P12757	SKIL_HUMAN	SKI-like isoform 1	292					cell cycle arrest|negative regulation of cell differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of axonogenesis|protein heterotrimerization|protein homotrimerization|regulation of apoptosis|regulation of apoptosis|response to antibiotic|response to growth factor stimulus|skeletal muscle tissue development	cytoplasm|PML body	chromatin binding|nucleotide binding|protein complex binding|protein domain specific binding|SMAD binding|transcription corepressor activity|transcription repressor activity			ovary(2)|skin(1)	3	all_cancers(22;7.13e-23)|all_epithelial(15;9.95e-28)|all_lung(20;1.23e-16)|Lung NSC(18;5.15e-16)|Ovarian(172;0.000337)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			TTCAATGTCTGGAGTGTTGTG	0.468													7	269	---	---	---	---	PASS
NLGN1	22871	broad.mit.edu	37	3	173997089	173997089	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:173997089G>T	uc003fio.1	+	6	1721	c.1298G>T	c.(1297-1299)AGA>ATA	p.R433I	NLGN1_uc010hww.1_Missense_Mutation_p.R473I|NLGN1_uc003fip.1_Missense_Mutation_p.R433I	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	450	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			GATGTTTTGAGAGAAACCATT	0.383													7	249	---	---	---	---	PASS
ACTL6A	86	broad.mit.edu	37	3	179292177	179292177	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:179292177G>T	uc003fjw.2	+	5	571	c.398G>T	c.(397-399)AGA>ATA	p.R133I	ACTL6A_uc003fjx.2_Missense_Mutation_p.R91I|ACTL6A_uc003fjy.2_Missense_Mutation_p.R91I	NM_004301	NP_004292	O96019	ACL6A_HUMAN	actin-like 6A isoform 1	133					chromatin remodeling|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|nervous system development|regulation of growth|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	Ino80 complex|npBAF complex|NuA4 histone acetyltransferase complex|plasma membrane|SWI/SNF complex	ATP binding|chromatin binding			ovary(1)	1	all_cancers(143;3.94e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)			AGAGCAAAGAGAGAGAAACTG	0.353													8	439	---	---	---	---	PASS
USP13	8975	broad.mit.edu	37	3	179481915	179481915	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:179481915G>T	uc003fkh.2	+	18	2299	c.2218G>T	c.(2218-2220)GGA>TGA	p.G740*		NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	740	UBA 2.				ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			CACCTCCATGGGATTTCAGCG	0.408													10	391	---	---	---	---	PASS
ATP11B	23200	broad.mit.edu	37	3	182554253	182554253	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:182554253C>A	uc003flb.2	+	6	804	c.547C>A	c.(547-549)CTG>ATG	p.L183M	ATP11B_uc003fla.2_Missense_Mutation_p.L183M	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	183	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			AGAAACTAACCTGAAGGTTTG	0.388													10	617	---	---	---	---	PASS
EIF2B5	8893	broad.mit.edu	37	3	183860854	183860854	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:183860854G>A	uc003fmp.2	+	12	2033	c.1669G>A	c.(1669-1671)GTT>ATT	p.V557I	EIF2B5_uc003fmq.2_Missense_Mutation_p.V278I|EIF2B5_uc003fmr.2_5'Flank	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	557	W2.				astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			CCAGAATGAAGTTTTAGGAAC	0.438													8	106	---	---	---	---	PASS
ECE2	9718	broad.mit.edu	37	3	184003289	184003289	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:184003289G>T	uc003fni.3	+	10	1564	c.1526G>T	c.(1525-1527)TGG>TTG	p.W509L	ECE2_uc011brh.1_Missense_Mutation_p.W362L|ECE2_uc003fnl.3_Missense_Mutation_p.W437L|ECE2_uc003fnm.3_Missense_Mutation_p.W391L|ECE2_uc003fnk.3_Missense_Mutation_p.W362L|ECE2_uc011bri.1_Missense_Mutation_p.W424L|ECE2_uc010hxv.2_Missense_Mutation_p.W153L	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	509	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TACCTGATCTGGAACCTGGTG	0.517											OREG0015945	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	313	---	---	---	---	PASS
SENP2	59343	broad.mit.edu	37	3	185316246	185316246	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:185316246C>T	uc003fpn.2	+	3	375	c.204C>T	c.(202-204)AGC>AGT	p.S68S	SENP2_uc011brv.1_Silent_p.S58S|SENP2_uc011brw.1_5'UTR	NM_021627	NP_067640	Q9HC62	SENP2_HUMAN	SUMO1/sentrin/SMT3 specific protease 2	68					mRNA transport|protein desumoylation|protein transport|proteolysis|regulation of Wnt receptor signaling pathway|transmembrane transport|Wnt receptor signaling pathway	cytoplasm|nuclear membrane|nuclear pore	protein binding|SUMO-specific protease activity				0	all_cancers(143;1.28e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			ATGCTGCCAGCTTATTTGGAT	0.413													15	143	---	---	---	---	PASS
MASP1	5648	broad.mit.edu	37	3	186980345	186980345	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:186980345T>A	uc003frh.1	-	3	733	c.401A>T	c.(400-402)CAC>CTC	p.H134L	MASP1_uc003fri.2_Missense_Mutation_p.H134L|MASP1_uc003frj.2_Missense_Mutation_p.H103L|MASP1_uc003frk.1_Missense_Mutation_p.H134L|MASP1_uc011bse.1_Missense_Mutation_p.H108L	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	134	Interaction with FCN2.|Interaction with MBL2.|Homodimerization (By similarity).|CUB 1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		AGCCATGTAGTGGGCATCAAA	0.507													43	179	---	---	---	---	PASS
ATP13A3	79572	broad.mit.edu	37	3	194151920	194151920	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:194151920C>T	uc003fty.3	-	22	2859	c.2457G>A	c.(2455-2457)GAG>GAA	p.E819E	ATP13A3_uc003ftz.1_Silent_p.E525E	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	819					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		TTTGAAGATCCTCTAAGCTAT	0.348													16	136	---	---	---	---	PASS
LRCH3	84859	broad.mit.edu	37	3	197598320	197598320	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:197598320C>A	uc011bul.1	+	19	2122	c.2117C>A	c.(2116-2118)CCC>CAC	p.P706H	LRCH3_uc003fyj.1_Missense_Mutation_p.P706H|LRCH3_uc011bum.1_Missense_Mutation_p.P654H|LRCH3_uc011bun.1_Missense_Mutation_p.P552H|LRCH3_uc003fyk.2_Missense_Mutation_p.P301H	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	706	CH.					extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		ATTCATGTTCCCTCACCAGCT	0.393													8	290	---	---	---	---	PASS
ZNF518B	85460	broad.mit.edu	37	4	10445265	10445265	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:10445265T>A	uc003gmn.2	-	3	3175	c.2688A>T	c.(2686-2688)TTA>TTT	p.L896F		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	896					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						TCTTCCTGGATAAGTGTACTT	0.393													11	52	---	---	---	---	PASS
MED28	80306	broad.mit.edu	37	4	17623283	17623283	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:17623283G>T	uc003gpi.1	+	3	312	c.300G>T	c.(298-300)TTG>TTT	p.L100F	MED28_uc003gpj.2_RNA	NM_025205	NP_079481	Q9H204	MED28_HUMAN	mediator complex subunit 28	100					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|membrane|nucleus	actin binding				0						AAAAAAGATTGCAGTTATCTG	0.353													4	26	---	---	---	---	PASS
KIT	3815	broad.mit.edu	37	4	55564640	55564640	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:55564640A>T	uc010igr.2	+	3	615	c.528A>T	c.(526-528)AAA>AAT	p.K176N	KIT_uc010igs.2_Missense_Mutation_p.K176N	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	176	Extracellular (Potential).|Ig-like C2-type 2.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	AAAGTGTGAAACGCGCCTACC	0.527		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				22	23	---	---	---	---	PASS
KDR	3791	broad.mit.edu	37	4	55964865	55964865	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:55964865C>G	uc003has.2	-	16	2674	c.2372G>C	c.(2371-2373)CGG>CCG	p.R791P	KDR_uc003hat.1_Missense_Mutation_p.R791P	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	791	Cytoplasmic (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	TTTTTTTACCCGCTTAACGGT	0.418			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			17	42	---	---	---	---	PASS
REST	5978	broad.mit.edu	37	4	57796520	57796520	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:57796520T>A	uc003hch.2	+	4	1843	c.1496T>A	c.(1495-1497)GTG>GAG	p.V499E	REST_uc003hci.2_Missense_Mutation_p.V499E|REST_uc010ihf.2_Missense_Mutation_p.V173E	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	499	Lys-rich.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					GTAACAGAGGTGAAAGAGATG	0.383													6	67	---	---	---	---	PASS
LPHN3	23284	broad.mit.edu	37	4	62775359	62775359	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:62775359A>G	uc010ihh.2	+	9	1938	c.1765A>G	c.(1765-1767)ACC>GCC	p.T589A	LPHN3_uc003hcq.3_Missense_Mutation_p.T589A|LPHN3_uc003hct.2_5'UTR|LPHN3_uc003hcs.1_Missense_Mutation_p.T418A	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	589	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						TGGGGACATCACCTACTCTGT	0.478													7	9	---	---	---	---	PASS
ENAM	10117	broad.mit.edu	37	4	71508091	71508091	+	Missense_Mutation	SNP	T	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:71508091T>G	uc011caw.1	+	9	1229	c.948T>G	c.(946-948)ATT>ATG	p.I316M		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	316					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			AGCCAAATATTCGTGAAAATC	0.468													36	16	---	---	---	---	PASS
CCDC158	339965	broad.mit.edu	37	4	77290776	77290776	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:77290776C>A	uc003hkb.3	-	10	1303	c.1150G>T	c.(1150-1152)GCT>TCT	p.A384S		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	384	Potential.									skin(3)|ovary(2)|pancreas(1)	6						TGTAGATCAGCCTAAAAAAAG	0.393													15	9	---	---	---	---	PASS
CCDC158	339965	broad.mit.edu	37	4	77290777	77290777	+	Splice_Site	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:77290777C>A	uc003hkb.3	-	10	1303	c.1150_splice	c.e10-1	p.A384_splice		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158											skin(3)|ovary(2)|pancreas(1)	6						GTAGATCAGCCTAAAAAAAGA	0.393													14	9	---	---	---	---	PASS
DDX60	55601	broad.mit.edu	37	4	169197228	169197228	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr4:169197228T>C	uc003irp.2	-	15	2375	c.2083A>G	c.(2083-2085)ATA>GTA	p.I695V		NM_017631	NP_060101	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	695							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		CATCTGGCTATGAGTTGCCGA	0.373													29	11	---	---	---	---	PASS
DNAH5	1767	broad.mit.edu	37	5	13793634	13793634	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:13793634G>T	uc003jfd.2	-	49	8256	c.8214C>A	c.(8212-8214)GAC>GAA	p.D2738E		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2738	AAA 3 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CAAAGATCTTGTCCACAGAAG	0.478									Kartagener_syndrome				15	99	---	---	---	---	PASS
TRIO	7204	broad.mit.edu	37	5	14507302	14507302	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:14507302A>T	uc003jff.2	+	56	8690	c.8684A>T	c.(8683-8685)CAC>CTC	p.H2895L	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2895	Protein kinase.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ATCAGGGCGCACCTGGGGGAG	0.622													13	17	---	---	---	---	PASS
CDH18	1016	broad.mit.edu	37	5	19544111	19544111	+	Nonsense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:19544111G>C	uc003jgc.2	-	8	1634	c.1257C>G	c.(1255-1257)TAC>TAG	p.Y419*	CDH18_uc003jgd.2_Nonsense_Mutation_p.Y419*|CDH18_uc011cnm.1_Nonsense_Mutation_p.Y419*	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	419	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					AGTTGATGAAGTATCTAGAGA	0.308													5	40	---	---	---	---	PASS
CDH12	1010	broad.mit.edu	37	5	21760696	21760696	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:21760696T>A	uc010iuc.2	-	10	2062	c.1604A>T	c.(1603-1605)AAA>ATA	p.K535I	CDH12_uc011cno.1_Missense_Mutation_p.K495I|CDH12_uc003jgk.2_Missense_Mutation_p.K535I|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	535	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						AAAATTTGGTTTGATAGCAGC	0.388										HNSCC(59;0.17)			8	125	---	---	---	---	PASS
CDH9	1007	broad.mit.edu	37	5	26885766	26885766	+	Silent	SNP	C	A	A	rs145328141	byFrequency	TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:26885766C>A	uc003jgs.1	-	11	2008	c.1839G>T	c.(1837-1839)ACG>ACT	p.T613T	CDH9_uc011cnv.1_Silent_p.T206T	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	613	Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						CGAGAGCTCCCGTGCTCAGGC	0.512													35	19	---	---	---	---	PASS
PDZD2	23037	broad.mit.edu	37	5	31983601	31983601	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:31983601C>G	uc003jhl.2	+	3	1205	c.817C>G	c.(817-819)CTC>GTC	p.L273V	PDZD2_uc003jhm.2_Missense_Mutation_p.L273V|PDZD2_uc011cnx.1_Missense_Mutation_p.L99V	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	273					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CCCAGATTCTCTCAAGGAGGT	0.532													9	127	---	---	---	---	PASS
PDZD2	23037	broad.mit.edu	37	5	32090546	32090546	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:32090546C>A	uc003jhl.2	+	20	7380	c.6992C>A	c.(6991-6993)TCA>TAA	p.S2331*	PDZD2_uc003jhm.2_Nonsense_Mutation_p.S2331*	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2331					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GAATCTACCTCATTTTTCTCT	0.507													6	188	---	---	---	---	PASS
HEATR7B2	133558	broad.mit.edu	37	5	40998243	40998243	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:40998243G>T	uc003jmj.3	-	42	5159	c.4669C>A	c.(4669-4671)CAA>AAA	p.Q1557K	HEATR7B2_uc003jmi.3_Missense_Mutation_p.Q1112K	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1557							binding			ovary(6)|central_nervous_system(2)	8						CACGGATCTTGACGAAGTGCT	0.488													124	119	---	---	---	---	PASS
HCN1	348980	broad.mit.edu	37	5	45262468	45262468	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:45262468G>T	uc003jok.2	-	8	2253	c.2228C>A	c.(2227-2229)CCG>CAG	p.P743Q		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	743	Gln-rich.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						agtctgcggcggctgggactg	0.428													6	4	---	---	---	---	PASS
HCN1	348980	broad.mit.edu	37	5	45262722	45262722	+	Silent	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:45262722G>C	uc003jok.2	-	8	1999	c.1974C>G	c.(1972-1974)TCC>TCG	p.S658S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	658	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TCCTCATGCGGGAGGTCGGGG	0.557													20	44	---	---	---	---	PASS
HCN1	348980	broad.mit.edu	37	5	45267206	45267206	+	Nonsense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:45267206G>A	uc003jok.2	-	7	1793	c.1768C>T	c.(1768-1770)CGA>TGA	p.R590*		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	590	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CGATCTAGTCGGTCAATGGCA	0.388													53	33	---	---	---	---	PASS
IL6ST	3572	broad.mit.edu	37	5	55247854	55247854	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:55247854T>A	uc003jqq.2	-	13	1857	c.1602A>T	c.(1600-1602)GAA>GAT	p.E534D	IL6ST_uc010iwb.2_Missense_Mutation_p.E473D|IL6ST_uc010iwc.2_Intron|IL6ST_uc010iwd.2_Intron|IL6ST_uc011cqk.1_Missense_Mutation_p.E245D|IL6ST_uc003jqr.2_3'UTR|IL6ST_uc010iwe.1_5'Flank	NM_002184	NP_002175	P40189	IL6RB_HUMAN	interleukin 6 signal transducer isoform 1	534	Extracellular (Potential).|Fibronectin type-III 5.				interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)				CTAAGACAGCTTCGTTTTTCC	0.353			O		hepatocellular ca								12	5	---	---	---	---	PASS
PIK3R1	5295	broad.mit.edu	37	5	67593336	67593336	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:67593336G>T	uc003jva.2	+	16	2642	c.2082G>T	c.(2080-2082)CTG>CTT	p.L694L	PIK3R1_uc003jvb.2_Silent_p.L694L|PIK3R1_uc003jvc.2_Silent_p.L394L|PIK3R1_uc003jvd.2_Silent_p.L424L|PIK3R1_uc003jve.2_Silent_p.L373L	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	694	SH2 2.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoproterenol(DB01064)	TGAAAGAACTGGTGCTACATT	0.493			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			7	150	---	---	---	---	PASS
CMYA5	202333	broad.mit.edu	37	5	79031807	79031807	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:79031807C>T	uc003kgc.2	+	2	7291	c.7219C>T	c.(7219-7221)CCA>TCA	p.P2407S		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2407						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		ATCAGAGAAACCAGAGTCAAT	0.358													9	25	---	---	---	---	PASS
FBN2	2201	broad.mit.edu	37	5	127800548	127800548	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:127800548A>T	uc003kuu.2	-	6	1134	c.695T>A	c.(694-696)ATT>AAT	p.I232N	FBN2_uc003kuv.2_Missense_Mutation_p.I199N|FBN2_uc003kuw.3_Missense_Mutation_p.I232N|FBN2_uc003kux.1_Missense_Mutation_p.I232N	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	232	TB 1.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		CGTGCAGACAATGCCTGTCAG	0.567													31	6	---	---	---	---	PASS
HSPA4	3308	broad.mit.edu	37	5	132424810	132424810	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:132424810C>T	uc003kyj.2	+	10	1482	c.1201C>T	c.(1201-1203)CCA>TCA	p.P401S		NM_002154	NP_002145	P34932	HSP74_HUMAN	heat shock 70kDa protein 4	401					cellular chaperone-mediated protein complex assembly|protein import into mitochondrial outer membrane|response to unfolded protein	cytoplasm|nucleus	ATP binding			lung(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGTACCATATCCAATATCTCT	0.328													5	32	---	---	---	---	PASS
TRPC7	57113	broad.mit.edu	37	5	135692600	135692600	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:135692600G>A	uc003lbn.1	-	1	476	c.473C>T	c.(472-474)ACG>ATG	p.T158M	TRPC7_uc010jef.1_Missense_Mutation_p.T150M|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.T150M|TRPC7_uc010jei.1_Missense_Mutation_p.T150M|TRPC7_uc010jej.1_Translation_Start_Site	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	159	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GGAGAAGCGCGTGCCGTCCTC	0.667													49	11	---	---	---	---	PASS
FLT4	2324	broad.mit.edu	37	5	180048825	180048825	+	Silent	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:180048825T>C	uc003mma.3	-	13	1816	c.1737A>G	c.(1735-1737)CAA>CAG	p.Q579Q	FLT4_uc003mlz.3_Silent_p.Q579Q|FLT4_uc003mmb.1_Silent_p.Q112Q|FLT4_uc011dgy.1_Silent_p.Q579Q	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	579	Ig-like C2-type 6.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	AGCTGTCGGCTTGGCAGCTCA	0.622									Congenital_Hereditary_Lymphedema				10	8	---	---	---	---	PASS
C6orf145	221749	broad.mit.edu	37	6	3737340	3737340	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:3737340T>A	uc003mvt.2	-	3	920	c.439A>T	c.(439-441)AGC>TGC	p.S147C		NM_183373	NP_899229	Q5TGL8	CF145_HUMAN	hypothetical protein LOC221749	147					cell communication		phosphatidylinositol binding			breast(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				CTTTGAAAGCTGGGTTGAATT	0.448													11	78	---	---	---	---	PASS
BTN3A1	11119	broad.mit.edu	37	6	26413559	26413559	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:26413559G>T	uc003nhv.2	+	10	1549	c.1181G>T	c.(1180-1182)AGA>ATA	p.R394I	BTN3A1_uc011dkj.1_3'UTR|BTN3A1_uc011dkk.1_Missense_Mutation_p.R342I|BTN3A1_uc010jqj.2_3'UTR	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	394	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						ATATCAGGGAGACATTACTGG	0.507													38	26	---	---	---	---	PASS
OR2B2	81697	broad.mit.edu	37	6	27879772	27879772	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:27879772G>T	uc011dkw.1	-	1	326	c.326C>A	c.(325-327)TCC>TAC	p.S109Y		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACATTCTGTGGAACCCAAGGC	0.463													26	20	---	---	---	---	PASS
GABBR1	2550	broad.mit.edu	37	6	29574776	29574776	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:29574776C>A	uc003nmt.3	-	18	2451	c.2115G>T	c.(2113-2115)CTG>CTT	p.L705L	GABBR1_uc003nmp.3_Silent_p.L588L|GABBR1_uc003nms.3_Silent_p.L588L|GABBR1_uc003nmu.3_Silent_p.L643L|GABBR1_uc011dlr.1_Silent_p.L528L	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	705	Cytoplasmic (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	TCCAGGGTTCCAGAGTCTGGA	0.592													5	35	---	---	---	---	PASS
FLOT1	10211	broad.mit.edu	37	6	30708458	30708458	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:30708458G>T	uc003nrm.2	-	6	636	c.472C>A	c.(472-474)CAG>AAG	p.Q158K	FLOT1_uc011dmr.1_Missense_Mutation_p.Q110K	NM_005803	NP_005794	O75955	FLOT1_HUMAN	flotillin 1	158						centriolar satellite|endosome|integral to membrane|melanosome|membrane fraction					0						AGTTTTACCTGGTCATCGTGA	0.468													5	79	---	---	---	---	PASS
LY6G5C	80741	broad.mit.edu	37	6	31644735	31644735	+	Nonstop_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:31644735T>A	uc003nvu.1	-	3	443	c.443A>T	c.(442-444)TAG>TTG	p.*148L	LY6G5C_uc003nvw.1_RNA|LY6G5C_uc010jtb.1_RNA	NM_025262	NP_079538	Q5SRR4	LY65C_HUMAN	lymphocyte antigen 6 complex G5C	148	UPAR/Ly6.					extracellular region					0						GCAGTCACACTAAGGAGTATA	0.478													8	69	---	---	---	---	PASS
TNFRSF21	27242	broad.mit.edu	37	6	47200539	47200539	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:47200539G>T	uc003oyv.2	-	6	2363	c.1930C>A	c.(1930-1932)CTG>ATG	p.L644M		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	644	Cytoplasmic (Potential).				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			ACAGAGTCCAGGAGGGTCTGG	0.468													6	145	---	---	---	---	PASS
PAQR8	85315	broad.mit.edu	37	6	52268753	52268753	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:52268753C>A	uc003pao.3	+	2	916	c.742C>A	c.(742-744)CAC>AAC	p.H248N		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	248	Helical; Name=5; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					AGCCTGGTACCACACCCTCCA	0.592													5	53	---	---	---	---	PASS
GCLC	2729	broad.mit.edu	37	6	53385711	53385711	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:53385711C>A	uc003pbw.1	-	3	699	c.311G>T	c.(310-312)GGG>GTG	p.G104V	GCLC_uc003pbx.2_Missense_Mutation_p.G104V	NM_001498	NP_001489	P48506	GSH1_HUMAN	glutamate-cysteine ligase, catalytic subunit	104					anti-apoptosis|cell redox homeostasis|cysteine metabolic process|glutamate metabolic process|glutathione biosynthetic process|negative regulation of transcription, DNA-dependent|regulation of blood vessel size|response to heat|response to hormone stimulus|response to oxidative stress|xenobiotic metabolic process	cytosol	ADP binding|ATP binding|coenzyme binding|glutamate binding|glutamate-cysteine ligase activity|magnesium ion binding			ovary(1)|central_nervous_system(1)	2	Lung NSC(77;0.0137)				L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)	TCCTGGTGTCCCTTCAATCAT	0.458													8	264	---	---	---	---	PASS
LRRC1	55227	broad.mit.edu	37	6	53784346	53784346	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:53784346G>T	uc003pcd.1	+	12	1434	c.1157G>T	c.(1156-1158)TGG>TTG	p.W386L		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	386	LRR 17.					cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		AAGGCTCTGTGGCTATCTGAC	0.418													6	72	---	---	---	---	PASS
IBTK	25998	broad.mit.edu	37	6	82950160	82950160	+	Missense_Mutation	SNP	A	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:82950160A>C	uc003pjl.1	-	2	571	c.44T>G	c.(43-45)CTG>CGG	p.L15R	IBTK_uc011dyv.1_Missense_Mutation_p.L15R|IBTK_uc011dyw.1_Missense_Mutation_p.L15R|IBTK_uc010kbi.1_5'UTR|IBTK_uc003pjm.2_Missense_Mutation_p.L15R	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	15					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		AGCATGCTTCAGGGATCGACA	0.403													7	90	---	---	---	---	PASS
CASP8AP2	9994	broad.mit.edu	37	6	90572028	90572028	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:90572028G>T	uc003pnr.2	+	7	796	c.600G>T	c.(598-600)AAG>AAT	p.K200N	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.K200N|CASP8AP2_uc011dzz.1_Missense_Mutation_p.K200N	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	200					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		ATCTGGAAAAGGAAGGAAAAC	0.383													7	203	---	---	---	---	PASS
C6orf167	253714	broad.mit.edu	37	6	97679333	97679333	+	Missense_Mutation	SNP	C	A	A	rs138260692		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:97679333C>A	uc003ppb.2	-	13	1764	c.1498G>T	c.(1498-1500)GGC>TGC	p.G500C	C6orf167_uc011eaf.1_Missense_Mutation_p.G460C|C6orf167_uc010kcn.1_Missense_Mutation_p.G274C	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	500					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		GGATGAGGGCCATTGCTCTTC	0.348													5	16	---	---	---	---	PASS
PRDM13	59336	broad.mit.edu	37	6	100062259	100062259	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:100062259C>A	uc003pqg.1	+	4	2009	c.1748C>A	c.(1747-1749)TCG>TAG	p.S583*		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	583	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		AAGCTGTACTCGCGCAAGTAT	0.453													13	13	---	---	---	---	PASS
SIM1	6492	broad.mit.edu	37	6	100896428	100896428	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:100896428C>T	uc003pqj.3	-	6	877	c.670G>A	c.(670-672)GAG>AAG	p.E224K	SIM1_uc010kcu.2_Missense_Mutation_p.E224K	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	224	PAS 2.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		AGCTTGATCTCCGTGACGGCG	0.617													10	20	---	---	---	---	PASS
LAMA4	3910	broad.mit.edu	37	6	112486384	112486384	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:112486384G>T	uc003pvu.2	-	13	1955	c.1646C>A	c.(1645-1647)TCA>TAA	p.S549*	LAMA4_uc003pvv.2_Nonsense_Mutation_p.S542*|LAMA4_uc003pvt.2_Nonsense_Mutation_p.S542*	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	549	Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		ATCAAGTTCTGAAAGAGTTAG	0.433													6	63	---	---	---	---	PASS
FRK	2444	broad.mit.edu	37	6	116381198	116381198	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:116381198T>C	uc003pwi.1	-	1	724	c.277A>G	c.(277-279)AGT>GGT	p.S93G		NM_002031	NP_002022	P42685	FRK_HUMAN	fyn-related kinase	93	SH3.				negative regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|lung(3)	6		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)		AGTTGCTGACTGGAGCCATCT	0.473													62	118	---	---	---	---	PASS
KPNA5	3841	broad.mit.edu	37	6	117043288	117043288	+	Splice_Site	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:117043288G>T	uc003pxh.2	+	9	888	c.757_splice	c.e9-1	p.V253_splice		NM_002269	NP_002260	O15131	IMA5_HUMAN	karyopherin alpha 5						NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding|protein transporter activity			breast(3)|skin(1)	4		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0298)|all cancers(137;0.0461)|OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.212)		TTCCCTTACAGGTTTCACCTT	0.323													4	27	---	---	---	---	PASS
THEMIS	387357	broad.mit.edu	37	6	128222064	128222064	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:128222064A>G	uc003qbi.2	-	2	333	c.14T>C	c.(13-15)CTG>CCG	p.L5P	THEMIS_uc011ebt.1_Missense_Mutation_p.L5P|THEMIS_uc010kfb.2_Intron	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	5	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						GAATTCTTCCAGTGATAATGC	0.493													24	72	---	---	---	---	PASS
LAMA2	3908	broad.mit.edu	37	6	129712691	129712691	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:129712691C>T	uc003qbn.2	+	36	5232	c.5127C>T	c.(5125-5127)GCC>GCT	p.A1709A	LAMA2_uc003qbo.2_Silent_p.A1709A	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1709	Domain II and I.|Potential.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GAGACGAGGCCTTTGAGAGAA	0.363													36	95	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152734570	152734570	+	Silent	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:152734570A>G	uc010kiw.2	-	42	6749	c.6147T>C	c.(6145-6147)GAT>GAC	p.D2049D	SYNE1_uc003qot.3_Silent_p.D2056D|SYNE1_uc003qou.3_Silent_p.D2049D|SYNE1_uc010kjb.1_Silent_p.D2032D	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2049	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CAAAAGCTACATCTTTCTGGG	0.403										HNSCC(10;0.0054)			28	53	---	---	---	---	PASS
TULP4	56995	broad.mit.edu	37	6	158923577	158923577	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:158923577A>G	uc003qrf.2	+	13	4239	c.2882A>G	c.(2881-2883)TAT>TGT	p.Y961C	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	961					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CCACCCCCGTATCCTGAAATT	0.662													10	11	---	---	---	---	PASS
MAP3K4	4216	broad.mit.edu	37	6	161470015	161470015	+	Silent	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:161470015A>T	uc003qtn.2	+	3	853	c.711A>T	c.(709-711)TCA>TCT	p.S237S	MAP3K4_uc010kkc.1_Silent_p.S237S|MAP3K4_uc003qto.2_Silent_p.S237S|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	237					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		AGCTTACCTCAGTCTCAAAGA	0.433													17	22	---	---	---	---	PASS
KIAA0415	9907	broad.mit.edu	37	7	4820834	4820834	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:4820834T>A	uc003sne.2	+	2	153	c.70T>A	c.(70-72)TTC>ATC	p.F24I	KIAA0415_uc010ksp.2_RNA	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	24					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		GCTGAAGAAGTTCTGTTCCCG	0.542													29	29	---	---	---	---	PASS
SP4	6671	broad.mit.edu	37	7	21521591	21521591	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:21521591G>A	uc003sva.2	+	5	2138	c.1957G>A	c.(1957-1959)GGA>AGA	p.G653R	SP4_uc003svb.2_Missense_Mutation_p.G340R	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	653	C2H2-type 1.				regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						TCATATTGAAGGATGTGGTAA	0.373													8	69	---	---	---	---	PASS
KLHL7	55975	broad.mit.edu	37	7	23207573	23207573	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:23207573C>G	uc003svs.3	+	9	1589	c.1296C>G	c.(1294-1296)ATC>ATG	p.I432M	KLHL7_uc003svr.3_Missense_Mutation_p.I410M|KLHL7_uc011jys.1_Missense_Mutation_p.I356M|KLHL7_uc011jyt.1_Missense_Mutation_p.I207M|KLHL7_uc003svt.2_Missense_Mutation_p.I384M|KLHL7_uc011jyv.1_Intron	NM_001031710	NP_001026880	Q8IXQ5	KLHL7_HUMAN	kelch-like 7 isoform 1	432	Kelch 4.					Golgi apparatus|nucleolus|plasma membrane					0						ATGGCCTAATCTATGTTTGTG	0.443													31	58	---	---	---	---	PASS
HOXA2	3199	broad.mit.edu	37	7	27141032	27141032	+	Silent	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:27141032A>T	uc003syh.2	-	2	719	c.444T>A	c.(442-444)ACT>ACA	p.T148T		NM_006735	NP_006726	O43364	HXA2_HUMAN	homeobox A2	148	Homeobox.					nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						TGGTGTAAGCAGTTCTCAGGC	0.537													11	10	---	---	---	---	PASS
C7orf16	10842	broad.mit.edu	37	7	31736665	31736665	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:31736665G>C	uc003tcl.2	+	4	480	c.322G>C	c.(322-324)GAC>CAC	p.D108H	C7orf16_uc011kaf.1_Missense_Mutation_p.D57H	NM_006658	NP_006649	O96001	GSUB_HUMAN	G-substrate isoform 1	108					behavior|central nervous system development|intracellular protein kinase cascade|protein phosphorylation	soluble fraction				ovary(2)|central_nervous_system(1)	3			GBM - Glioblastoma multiforme(11;0.216)			TCATAACACTGACCTGGAACA	0.458													29	59	---	---	---	---	PASS
PKD1L1	168507	broad.mit.edu	37	7	47979871	47979871	+	Silent	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:47979871A>G	uc003tny.1	-	3	204	c.204T>C	c.(202-204)TGT>TGC	p.C68C		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	68	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AAGGACAGCCACACTTCCCAT	0.473													38	37	---	---	---	---	PASS
FKBP6	8468	broad.mit.edu	37	7	72756882	72756882	+	Silent	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:72756882A>T	uc003tya.2	+	8	1101	c.969A>T	c.(967-969)ACA>ACT	p.T323T	FKBP6_uc003twz.2_Silent_p.T293T|FKBP6_uc011kew.1_Silent_p.T318T	NM_003602	NP_003593	O75344	FKBP6_HUMAN	FK506 binding protein 6 isoform a	323					protein folding	membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				ATGGTTCTACAGCAGGAGAAA	0.537											OREG0018106	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	68	---	---	---	---	PASS
PHTF2	57157	broad.mit.edu	37	7	77539631	77539631	+	Silent	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:77539631A>G	uc003ugs.3	+	8	807	c.681A>G	c.(679-681)ACA>ACG	p.T227T	PHTF2_uc003ugo.3_Silent_p.T189T|PHTF2_uc003ugp.2_Silent_p.T189T|PHTF2_uc003ugq.3_Silent_p.T189T|PHTF2_uc010ldv.2_Silent_p.T189T|PHTF2_uc003ugr.3_Silent_p.T193T|PHTF2_uc003ugt.3_Silent_p.T193T|PHTF2_uc003ugu.3_Silent_p.T189T|PHTF2_uc003ugv.2_Silent_p.T52T|PHTF2_uc010ldw.1_Silent_p.T52T	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	227					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						CAGATAACACACAAGAGGGAG	0.448													45	49	---	---	---	---	PASS
ABCB1	5243	broad.mit.edu	37	7	87196249	87196249	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:87196249C>A	uc003uiz.1	-	7	800	c.382G>T	c.(382-384)GCT>TCT	p.A128S	ABCB1_uc011khc.1_Intron	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	128	ABC transmembrane type-1 1.|Helical; (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	ATGTAAGCAGCAACCAGCACC	0.403													9	53	---	---	---	---	PASS
CLDN12	9069	broad.mit.edu	37	7	90042424	90042424	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:90042424C>G	uc003ukp.2	+	5	1070	c.434C>G	c.(433-435)ACT>AGT	p.T145S	CLDN12_uc003ukq.2_Missense_Mutation_p.T145S|CLDN12_uc010leq.2_Missense_Mutation_p.T145S|CLDN12_uc003ukr.2_Missense_Mutation_p.T145S|CLDN12_uc003uks.2_Missense_Mutation_p.T145S	NM_012129	NP_036261	P56749	CLD12_HUMAN	claudin 12	145	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CTGGCAGGTACTGTGAGCCTC	0.488													11	68	---	---	---	---	PASS
CASD1	64921	broad.mit.edu	37	7	94174935	94174935	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:94174935C>T	uc003uni.3	+	12	1782	c.1555C>T	c.(1555-1557)CCC>TCC	p.P519S	CASD1_uc003unj.3_Missense_Mutation_p.P519S	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	519	Helical; (Potential).					integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			TTACTTTGTCCCCTTGGTCAC	0.328													29	21	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	100552224	100552224	+	RNA	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:100552224T>C	uc003uxk.1	+	1		c.1475T>C			uc003uxl.1_Silent_p.T225T					Homo sapiens MUC3B mRNA for intestinal mucin, partial cds.																		GTCCAGGAACTATAACAATTA	0.493													77	304	---	---	---	---	PASS
ZNHIT1	10467	broad.mit.edu	37	7	100866982	100866982	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:100866982A>G	uc003uye.2	+	4	794	c.302A>G	c.(301-303)TAC>TGC	p.Y101C	ZNHIT1_uc003uyf.2_RNA	NM_006349	NP_006340	O43257	ZNHI1_HUMAN	zinc finger, HIT domain containing 1	101							metal ion binding|protein binding			large_intestine(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					GGCCCTAACTACCTGACGGCC	0.682													17	21	---	---	---	---	PASS
SLC26A4	5172	broad.mit.edu	37	7	107323902	107323902	+	Silent	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:107323902G>C	uc003vep.2	+	8	1145	c.921G>C	c.(919-921)ACG>ACC	p.T307T		NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	307	Helical; (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						TATTTCAGACGATAATTGCTA	0.348									Pendred_syndrome				19	35	---	---	---	---	PASS
PPP1R3A	5506	broad.mit.edu	37	7	113519573	113519573	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:113519573C>T	uc010ljy.1	-	4	1605	c.1574G>A	c.(1573-1575)GGT>GAT	p.G525D		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	525					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TTCATTAACACCTAAATATAT	0.353													12	23	---	---	---	---	PASS
FOXP2	93986	broad.mit.edu	37	7	114271687	114271687	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:114271687C>T	uc003vhb.2	+	6	1076	c.702C>T	c.(700-702)CTC>CTT	p.L234L	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Silent_p.L259L|FOXP2_uc003vha.2_Silent_p.L142L|FOXP2_uc011kmu.1_Silent_p.L251L|FOXP2_uc011kmv.1_Silent_p.L233L|FOXP2_uc010ljz.1_Silent_p.L142L|FOXP2_uc003vgt.1_RNA|FOXP2_uc003vgv.1_Silent_p.L234L|FOXP2_uc003vgx.2_Silent_p.L234L|FOXP2_uc003vhd.2_Silent_p.L234L|FOXP2_uc003vhc.2_Silent_p.L259L	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	234	Gln-rich.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						AGCATCTGCTCAGCCTTCAGC	0.478													14	18	---	---	---	---	PASS
TES	26136	broad.mit.edu	37	7	115892000	115892000	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:115892000G>T	uc003vho.2	+	5	1070	c.889G>T	c.(889-891)GAG>TAG	p.E297*	TES_uc011kmy.1_Nonsense_Mutation_p.E55*|TES_uc003vhp.2_Nonsense_Mutation_p.E288*|uc003vhq.1_5'Flank	NM_015641	NP_056456	Q9UGI8	TES_HUMAN	testin isoform 1	297	LIM zinc-binding 1.				negative regulation of cell proliferation	cytoplasm|focal adhesion|nucleus|protein complex	zinc ion binding				0	Lung NSC(10;0.0137)|all_lung(10;0.0148)	Breast(660;0.0602)	STAD - Stomach adenocarcinoma(10;0.00878)			CTGTGACAGCGAGAAACCCCG	0.493													31	32	---	---	---	---	PASS
AASS	10157	broad.mit.edu	37	7	121753271	121753271	+	Silent	SNP	C	G	G	rs139733515		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:121753271C>G	uc003vka.2	-	10	1275	c.1179G>C	c.(1177-1179)TCG>TCC	p.S393S	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Silent_p.S393S|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	393	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TCAGGATCCCCGAGCCTTCAA	0.408													12	16	---	---	---	---	PASS
LUC7L2	51631	broad.mit.edu	37	7	139030286	139030286	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:139030286C>T	uc011kqt.1	+	2	412	c.178C>T	c.(178-180)CAT>TAT	p.H60Y	LUC7L2_uc011kqs.1_Intron|C7orf55_uc003vuw.3_Missense_Mutation_p.H60Y	NM_016019	NP_057103	Q9Y383	LC7L2_HUMAN	LUC7-like 2	Error:Variant_position_missing_in_Q9Y383_after_alignment							enzyme binding|metal ion binding				0	Melanoma(164;0.242)					ACATGAGCTTCATTTCCAAGC	0.507													14	42	---	---	---	---	PASS
DENND2A	27147	broad.mit.edu	37	7	140301390	140301390	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:140301390G>A	uc010lnj.2	-	1	953	c.808C>T	c.(808-810)CGG>TGG	p.R270W	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.R270W|DENND2A_uc003vvw.2_Missense_Mutation_p.R270W|DENND2A_uc003vvx.2_Missense_Mutation_p.R270W	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	270										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					AACGTTCTCCGGGGTTTTGGC	0.498													65	96	---	---	---	---	PASS
TAS2R38	5726	broad.mit.edu	37	7	141673168	141673168	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:141673168A>T	uc003vwx.1	-	1	406	c.322T>A	c.(322-324)TGG>AGG	p.W108R		NM_176817	NP_789787	P59533	T2R38_HUMAN	taste receptor, type 2, member 38	108	Helical; Name=3; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			kidney(1)|skin(1)	2	Melanoma(164;0.0171)					GCAGCAAGCCAGAGGTTGGCT	0.517													30	33	---	---	---	---	PASS
MGAM	8972	broad.mit.edu	37	7	141800656	141800656	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:141800656G>A	uc003vwy.2	+	45	5295	c.5241G>A	c.(5239-5241)GGG>GGA	p.G1747G		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1747	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GAACTGCTGGGGGCTGGCTCT	0.498													5	25	---	---	---	---	PASS
OR9A2	135924	broad.mit.edu	37	7	142723686	142723686	+	Silent	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:142723686C>G	uc003wcc.1	-	1	534	c.534G>C	c.(532-534)GGG>GGC	p.G178G		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	178	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					TGAGCAATTGCCCTCGGTCAC	0.398													33	49	---	---	---	---	PASS
MLL3	58508	broad.mit.edu	37	7	151878701	151878701	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:151878701T>C	uc003wla.2	-	36	6463	c.6244A>G	c.(6244-6246)ATA>GTA	p.I2082V	MLL3_uc003wkz.2_Missense_Mutation_p.I1143V	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2082	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AAATTATCTATAGGTCTTGGT	0.458			N		medulloblastoma								27	35	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	2876056	2876056	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:2876056G>T	uc011kwk.1	-	52	8365	c.7975C>A	c.(7975-7977)CAT>AAT	p.H2659N	CSMD1_uc011kwj.1_Missense_Mutation_p.H1988N|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2659	Extracellular (Potential).|Sushi 17.					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)		TCTCTGACATGAGACCCCACA	0.488													101	44	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	3245035	3245035	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:3245035G>A	uc011kwk.1	-	18	3156	c.2766C>T	c.(2764-2766)CAC>CAT	p.H922H	CSMD1_uc011kwj.1_Silent_p.H314H|CSMD1_uc003wqe.2_Silent_p.H78H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	922	Extracellular (Potential).|Sushi 5.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TGGGCAAGGCGTGGTTCCACT	0.582													4	1	---	---	---	---	PASS
DLC1	10395	broad.mit.edu	37	8	12957525	12957525	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:12957525A>T	uc003wwm.2	-	9	2765	c.2321T>A	c.(2320-2322)ATG>AAG	p.M774K	DLC1_uc003wwk.1_Missense_Mutation_p.M337K|DLC1_uc003wwl.1_Missense_Mutation_p.M371K|DLC1_uc011kxx.1_Missense_Mutation_p.M263K	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	774					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CTCTAAGTACATGCCCACCCG	0.577													16	3	---	---	---	---	PASS
CLU	1191	broad.mit.edu	37	8	27468014	27468014	+	Silent	SNP	C	A	A	rs141237968	byFrequency	TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:27468014C>A	uc003xfw.1	-	1	133	c.75G>T	c.(73-75)ACG>ACT	p.T25T	CLU_uc010lux.1_5'UTR|CLU_uc003xfx.1_Silent_p.T25T|CLU_uc003xfy.1_Silent_p.T36T|CLU_uc003xfz.1_Silent_p.T77T	NM_203339	NP_976084	P10909	CLUS_HUMAN	clusterin isoform 2	25					chaperone-mediated protein folding|complement activation, classical pathway|innate immune response|lipid metabolic process|negative regulation of apoptosis|negative regulation of protein homooligomerization|platelet activation|platelet degranulation|positive regulation of NF-kappaB transcription factor activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|response to misfolded protein|response to virus|reverse cholesterol transport	chromaffin granule|cytosol|endoplasmic reticulum|microsome|mitochondrial membrane|nucleus|perinuclear region of cytoplasm|platelet alpha granule lumen|spherical high-density lipoprotein particle	misfolded protein binding|ubiquitin protein ligase binding			ovary(2)	2		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|Colorectal(74;0.132)		TGTCTGAGACCGTCTGGTCCC	0.567													17	9	---	---	---	---	PASS
TEX15	56154	broad.mit.edu	37	8	30703523	30703523	+	Nonsense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:30703523A>T	uc003xil.2	-	1	3011	c.3011T>A	c.(3010-3012)TTA>TAA	p.L1004*		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1004										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		AGCTTTTTTTAAGTGAACAAC	0.338													54	19	---	---	---	---	PASS
HTRA4	203100	broad.mit.edu	37	8	38832580	38832580	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:38832580A>G	uc003xmj.2	+	2	612	c.497A>G	c.(496-498)AAT>AGT	p.N166S		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	166					proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			CTCAGGAGGAATTACAACTTC	0.557													59	27	---	---	---	---	PASS
PCMTD1	115294	broad.mit.edu	37	8	52733199	52733199	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:52733199C>T	uc003xqx.3	-	6	1127	c.786G>A	c.(784-786)GAG>GAA	p.E262E	PCMTD1_uc011ldm.1_Silent_p.E132E|PCMTD1_uc003xqw.3_Silent_p.E262E|PCMTD1_uc011ldn.1_Silent_p.E74E|PCMTD1_uc010lya.2_Silent_p.E186E	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	262						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				TGGCCTGCATCTCATCATTTA	0.408													7	102	---	---	---	---	PASS
RP1	6101	broad.mit.edu	37	8	55534821	55534821	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:55534821G>T	uc003xsd.1	+	3	908	c.760G>T	c.(760-762)GGA>TGA	p.G254*	RP1_uc011ldy.1_Nonsense_Mutation_p.G254*	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	254					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GTACCCCAAGGGAAATGCAAA	0.423													39	12	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77616390	77616390	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:77616390G>T	uc003yav.2	+	2	454	c.67G>T	c.(67-69)GGA>TGA	p.G23*	ZFHX4_uc003yat.1_Nonsense_Mutation_p.G23*|ZFHX4_uc003yau.1_Nonsense_Mutation_p.G23*|ZFHX4_uc003yaw.1_Nonsense_Mutation_p.G23*	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	23						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAAGCTATGTGGAACGACACA	0.493										HNSCC(33;0.089)			5	53	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77775461	77775461	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:77775461C>A	uc003yav.2	+	11	9763	c.9376C>A	c.(9376-9378)CCT>ACT	p.P3126T		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3122	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			tcctcctcctcctcctccttc	0.358										HNSCC(33;0.089)			18	9	---	---	---	---	PASS
RALYL	138046	broad.mit.edu	37	8	85799928	85799928	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:85799928G>A	uc003ycq.3	+	9	1191	c.775G>A	c.(775-777)GCT>ACT	p.A259T	RALYL_uc003ycr.3_Missense_Mutation_p.A259T|RALYL_uc003ycs.3_Missense_Mutation_p.A259T|RALYL_uc010lzy.2_Missense_Mutation_p.A248T|RALYL_uc003yct.3_Missense_Mutation_p.A272T|RALYL_uc003ycu.3_Missense_Mutation_p.A186T|RALYL_uc003ycv.3_Intron	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	259							identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						AGAGGAGCCTGCTGAAGGAGG	0.507													9	137	---	---	---	---	PASS
CTHRC1	115908	broad.mit.edu	37	8	104390442	104390442	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:104390442C>T	uc003ylk.2	+	3	659	c.560C>T	c.(559-561)TCA>TTA	p.S187L		NM_138455	NP_612464	Q96CG8	CTHR1_HUMAN	collagen triple helix repeat containing 1	187						collagen				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(57;2.79e-06)|STAD - Stomach adenocarcinoma(118;0.197)			GAAATGAATTCAACAATTAAT	0.373													8	46	---	---	---	---	PASS
ZFPM2	23414	broad.mit.edu	37	8	106815050	106815050	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:106815050A>G	uc003ymd.2	+	8	2763	c.2740A>G	c.(2740-2742)ATA>GTA	p.I914V	ZFPM2_uc011lhs.1_Missense_Mutation_p.I645V	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	914					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AAGAAGCATAATAAAATGTGA	0.453													23	22	---	---	---	---	PASS
TAF2	6873	broad.mit.edu	37	8	120759010	120759010	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:120759010C>G	uc003you.2	-	23	3313	c.3043G>C	c.(3043-3045)GCA>CCA	p.A1015P		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	1015					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TGGTTGCCTGCTACTGACTCT	0.428													17	125	---	---	---	---	PASS
ZNF34	80778	broad.mit.edu	37	8	145999031	145999031	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:145999031C>A	uc003zdy.3	-	6	1405	c.1303G>T	c.(1303-1305)GTG>TTG	p.V435L	ZNF34_uc010mgb.2_Missense_Mutation_p.V332L|ZNF34_uc003zdx.3_Missense_Mutation_p.V414L	NM_030580	NP_085057	Q8IZ26	ZNF34_HUMAN	zinc finger protein 34	435	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.221)	OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;5.18e-38)|all cancers(56;4.41e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.0179)		TGATGTTCCACGAGTTTGGTT	0.413													39	13	---	---	---	---	PASS
DMRT1	1761	broad.mit.edu	37	9	893917	893917	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:893917C>T	uc003zgv.2	+	3	693	c.544C>T	c.(544-546)CGT>TGT	p.R182C	DMRT1_uc003zgu.1_Missense_Mutation_p.R182C	NM_021951	NP_068770	Q9Y5R6	DMRT1_HUMAN	doublesex and mab-3 related transcription factor	182					cell differentiation|male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(10;2.66e-10)|Lung NSC(10;2.82e-10)|Breast(48;0.232)		Lung(218;0.037)		TTTAGAGGGACGTATGGTCAT	0.448											OREG0019071	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	18	---	---	---	---	PASS
C9orf68	55064	broad.mit.edu	37	9	4605351	4605351	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:4605351T>C	uc011llz.1	-	9	1149	c.911A>G	c.(910-912)AAC>AGC	p.N304S	C9orf68_uc003zik.2_RNA|C9orf68_uc003zil.2_RNA|C9orf68_uc010mhj.2_Missense_Mutation_p.N362S|C9orf68_uc011lly.1_Missense_Mutation_p.N239S	NM_001039395	NP_001034484	B4DIY4	B4DIY4_HUMAN	hypothetical protein LOC55064	304											0		Breast(48;0.0456)		GBM - Glioblastoma multiforme(50;0.0222)		TCTAACCTTGTTTTGGTGCAG	0.328													29	7	---	---	---	---	PASS
C9orf72	203228	broad.mit.edu	37	9	27556758	27556758	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:27556758C>T	uc003zqq.2	-	8	989	c.892G>A	c.(892-894)GTC>ATC	p.V298I		NM_018325	NP_060795	Q96LT7	CI072_HUMAN	hypothetical protein LOC203228 isoform a	298										ovary(3)|central_nervous_system(1)	4		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		GCATACATGACTTGCCGGAAA	0.378													46	27	---	---	---	---	PASS
UBAP1	51271	broad.mit.edu	37	9	34241647	34241647	+	Silent	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:34241647G>C	uc003ztx.2	+	4	859	c.624G>C	c.(622-624)GTG>GTC	p.V208V	UBAP1_uc010mka.1_Silent_p.V244V|UBAP1_uc003zty.2_Silent_p.V208V|UBAP1_uc011loi.1_Silent_p.V244V|UBAP1_uc011loj.1_Silent_p.V272V|KIF24_uc010mkb.2_Intron|UBAP1_uc003ztz.2_Silent_p.V208V	NM_016525	NP_057609	Q9NZ09	UBAP1_HUMAN	ubiquitin associated protein 1	208						cytoplasm					0			LUSC - Lung squamous cell carcinoma(29;0.00272)			CTGGGTCTGTGTTACAGGATG	0.483													13	162	---	---	---	---	PASS
KIF24	347240	broad.mit.edu	37	9	34257596	34257596	+	Missense_Mutation	SNP	G	T	T	rs10972026		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:34257596G>T	uc003zua.3	-	11	2129	c.2009C>A	c.(2008-2010)TCT>TAT	p.S670Y	KIF24_uc010mkb.2_Intron	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	670					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			ATTTTTCTCAGAGCACAATGG	0.527													11	443	---	---	---	---	PASS
VCP	7415	broad.mit.edu	37	9	35061053	35061053	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:35061053C>A	uc003zvy.2	-	11	1707	c.1318G>T	c.(1318-1320)GAG>TAG	p.E440*	VCP_uc003zvz.2_RNA|VCP_uc010mkh.1_Nonsense_Mutation_p.E109*|VCP_uc010mki.1_Nonsense_Mutation_p.E395*	NM_007126	NP_009057	P55072	TERA_HUMAN	valosin-containing protein	440					activation of caspase activity|double-strand break repair|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|retrograde protein transport, ER to cytosol	cytosol|endoplasmic reticulum|microsome|nucleus|proteasome complex	ATP binding|ATPase activity|lipid binding|polyubiquitin binding|protein domain specific binding|protein phosphatase binding			upper_aerodigestive_tract(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			TTCATGACCTCGGCATCAATG	0.527													11	882	---	---	---	---	PASS
FAM166B	730112	broad.mit.edu	37	9	35563227	35563227	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:35563227C>A	uc010mkr.2	-	2	293	c.222G>T	c.(220-222)AGG>AGT	p.R74S	FAM166B_uc011lov.1_Missense_Mutation_p.R74S|FAM166B_uc011low.1_Missense_Mutation_p.R74S|FAM166B_uc003zwy.2_Missense_Mutation_p.R74S	NM_001164310	NP_001157782	A8MTA8	F166B_HUMAN	hypothetical protein LOC730112 isoform 1	74											0						GTAGACTCTCCCTGGGAACCT	0.617													12	552	---	---	---	---	PASS
MSMP	692094	broad.mit.edu	37	9	35753243	35753243	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:35753243C>A	uc003zyb.1	-	3	420	c.274G>T	c.(274-276)GAG>TAG	p.E92*		NM_001044264	NP_001037729	Q1L6U9	MSMP_HUMAN	PC3-secreted microprotein precursor	92						extracellular region					0						TGACGTACCTCACACCCAGCC	0.602													6	129	---	---	---	---	PASS
NPR2	4882	broad.mit.edu	37	9	35807326	35807326	+	Splice_Site	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:35807326G>T	uc003zyd.2	+	18	2644	c.2644_splice	c.e18-1	p.V882_splice	NPR2_uc010mlb.2_Splice_Site_p.V858_splice	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor						intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	ATCCCTTTTAGGTAGTGACAC	0.423													12	689	---	---	---	---	PASS
TMEM8B	51754	broad.mit.edu	37	9	35853137	35853137	+	Splice_Site	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:35853137G>T	uc003zym.2	+	13	1982	c.967_splice	c.e13-1	p.V323_splice	TMEM8B_uc003zyo.2_Splice_Site_p.V323_splice	NM_001042589	NP_001036054	A6NDV4	TMM8B_HUMAN	transmembrane protein 8B isoform a						cell-matrix adhesion|regulation of growth|regulation of mitotic cell cycle	cell surface|endoplasmic reticulum|integral to membrane|mitochondrion|nucleus|plasma membrane	protein binding			ovary(1)	1						TCTTTCTCTAGGTGCTGTATT	0.582													11	831	---	---	---	---	PASS
TRPM3	80036	broad.mit.edu	37	9	73235238	73235238	+	Missense_Mutation	SNP	C	A	A	rs145000157		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:73235238C>A	uc004aid.2	-	15	2091	c.1847G>T	c.(1846-1848)CGT>CTT	p.R616L	TRPM3_uc004ahu.2_Missense_Mutation_p.R446L|TRPM3_uc004ahv.2_Missense_Mutation_p.R418L|TRPM3_uc004ahw.2_Missense_Mutation_p.R488L|TRPM3_uc004ahx.2_Missense_Mutation_p.R475L|TRPM3_uc004ahy.2_Missense_Mutation_p.R478L|TRPM3_uc004ahz.2_Missense_Mutation_p.R465L|TRPM3_uc004aia.2_Missense_Mutation_p.R463L|TRPM3_uc004aib.2_Missense_Mutation_p.R453L|TRPM3_uc004aic.2_Missense_Mutation_p.R616L	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	641	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						CTCTTCTTCACGTTTCTTGGT	0.433													129	26	---	---	---	---	PASS
PRUNE2	158471	broad.mit.edu	37	9	79324805	79324805	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:79324805C>A	uc010mpk.2	-	8	2509	c.2385G>T	c.(2383-2385)GCG>GCT	p.A795A		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	795					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTGGGAATGGCGCCACAGCTG	0.488													7	35	---	---	---	---	PASS
GKAP1	80318	broad.mit.edu	37	9	86403544	86403544	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:86403544C>A	uc004amy.2	-	5	906	c.410G>T	c.(409-411)AGT>ATT	p.S137I	GKAP1_uc004amz.2_Missense_Mutation_p.S137I|GKAP1_uc011lsu.1_RNA	NM_025211	NP_079487	Q5VSY0	GKAP1_HUMAN	G kinase anchoring protein 1 isoform a	137	Potential.				signal transduction	Golgi apparatus					0						TTCTAGTTTACTTAGTAACAA	0.303													4	107	---	---	---	---	PASS
C9orf79	286234	broad.mit.edu	37	9	90500668	90500668	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:90500668C>A	uc004app.3	+	4	1301	c.1266C>A	c.(1264-1266)GTC>GTA	p.V422V	C9orf79_uc004apo.1_Silent_p.V234V	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	422						integral to membrane				ovary(3)	3						CTCAGCAAGTCTCTGATGCCA	0.577													75	19	---	---	---	---	PASS
FANCC	2176	broad.mit.edu	37	9	97864116	97864116	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:97864116T>A	uc004avh.2	-	15	1812	c.1550A>T	c.(1549-1551)GAG>GTG	p.E517V		NM_000136	NP_000127	Q00597	FANCC_HUMAN	Fanconi anemia, complementation group C	517					protein complex assembly	cytosol|nucleoplasm	protein binding			kidney(1)	1		Acute lymphoblastic leukemia(62;0.138)				GTGAGTTATCTCAGCAGTGTG	0.473			D|Mis|N|F|S			AML|leukemia		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				17	64	---	---	---	---	PASS
IKBKAP	8518	broad.mit.edu	37	9	111640903	111640903	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:111640903C>A	uc004bdm.3	-	34	4220	c.3700G>T	c.(3700-3702)GAT>TAT	p.D1234Y	IKBKAP_uc004bdl.2_Missense_Mutation_p.D885Y|IKBKAP_uc011lwc.1_Missense_Mutation_p.D1120Y|IKBKAP_uc010mtq.2_Missense_Mutation_p.D885Y|IKBKAP_uc004bdk.2_Missense_Mutation_p.D238Y|IKBKAP_uc010mtp.2_RNA	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	1234					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						GAGAATATACCTTTCAGGTTT	0.498													8	175	---	---	---	---	PASS
ZNF483	158399	broad.mit.edu	37	9	114296103	114296103	+	Missense_Mutation	SNP	A	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:114296103A>C	uc004bff.2	+	4	810	c.586A>C	c.(586-588)AAG>CAG	p.K196Q	ZNF483_uc011lwq.1_Missense_Mutation_p.K196Q|ZNF483_uc004bfg.2_Missense_Mutation_p.K196Q	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	196	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						GGAGCTATATAAGGAAGTGCT	0.408													6	64	---	---	---	---	PASS
C10orf18	54906	broad.mit.edu	37	10	5799560	5799560	+	Silent	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:5799560T>C	uc001iij.2	+	17	7435	c.6810T>C	c.(6808-6810)GAT>GAC	p.D2270D	C10orf18_uc001iik.2_Silent_p.D1114D	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	2270										ovary(1)|central_nervous_system(1)	2						ATGTTCTTGATCACACCTACC	0.438													43	159	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	17156039	17156039	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:17156039C>A	uc001ioo.2	-	8	922	c.870G>T	c.(868-870)GGG>GGT	p.G290G		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	290	EGF-like 3; calcium-binding (Potential).				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTGGACAGGCCCCACAGTAGA	0.552													7	12	---	---	---	---	PASS
ZEB1	6935	broad.mit.edu	37	10	31810412	31810412	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:31810412C>A	uc001ivs.3	+	7	2212	c.2149C>A	c.(2149-2151)CAG>AAG	p.Q717K	ZEB1_uc001ivr.3_Missense_Mutation_p.Q499K|ZEB1_uc010qee.1_Missense_Mutation_p.Q499K|ZEB1_uc010qef.1_Missense_Mutation_p.Q499K|ZEB1_uc009xlj.1_Missense_Mutation_p.Q643K|ZEB1_uc010qeg.1_Missense_Mutation_p.Q576K|ZEB1_uc009xlk.1_Missense_Mutation_p.Q499K|ZEB1_uc001ivt.3_Missense_Mutation_p.Q499K|ZEB1_uc001ivu.3_Missense_Mutation_p.Q718K|ZEB1_uc001ivv.3_Missense_Mutation_p.Q697K|ZEB1_uc010qeh.1_Missense_Mutation_p.Q650K|ZEB1_uc009xlo.1_Missense_Mutation_p.Q700K|ZEB1_uc009xlp.2_Missense_Mutation_p.Q701K	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	717					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)				CAGAAATACACAGGGTTACTT	0.453													16	41	---	---	---	---	PASS
ZNF33A	7581	broad.mit.edu	37	10	38345348	38345348	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:38345348G>C	uc001izh.2	+	5	2471	c.2293G>C	c.(2293-2295)GTA>CTA	p.V765L	ZNF33A_uc001izg.2_Missense_Mutation_p.V766L|ZNF33A_uc010qev.1_Missense_Mutation_p.V772L|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	765	C2H2-type 16.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						AAATCTCATTGTACATCAGAG	0.378													25	39	---	---	---	---	PASS
FRMPD2	143162	broad.mit.edu	37	10	49392662	49392662	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:49392662C>G	uc001jgi.2	-	20	2638	c.2531G>C	c.(2530-2532)AGG>ACG	p.R844T	FRMPD2_uc001jgh.2_Missense_Mutation_p.R812T|FRMPD2_uc001jgj.2_Missense_Mutation_p.R822T	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	844	PDZ 1.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CTGGATCATCCTAACAGCCAT	0.408													16	25	---	---	---	---	PASS
SAMD8	142891	broad.mit.edu	37	10	76910349	76910349	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:76910349G>A	uc001jwx.1	+	2	166	c.63G>A	c.(61-63)CTG>CTA	p.L21L	SAMD8_uc001jwy.1_Silent_p.L21L	NM_144660	NP_653261	Q96LT4	SAMD8_HUMAN	sterile alpha motif domain containing 8	21	SAM.				sphingomyelin biosynthetic process	integral to membrane					0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					CTGTGTGGCTGAAGGATGAAG	0.453													23	26	---	---	---	---	PASS
GBF1	8729	broad.mit.edu	37	10	104135269	104135269	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:104135269G>C	uc001kux.1	+	30	4051	c.3811G>C	c.(3811-3813)GAG>CAG	p.E1271Q	GBF1_uc001kuy.1_Missense_Mutation_p.E1271Q|GBF1_uc001kuz.1_Missense_Mutation_p.E1272Q	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1271					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CACACTGCTGGAGTGCATCGG	0.592													16	8	---	---	---	---	PASS
SORCS3	22986	broad.mit.edu	37	10	106907389	106907389	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:106907389C>T	uc001kyi.1	+	9	1544	c.1317C>T	c.(1315-1317)ATC>ATT	p.I439I		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	439	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TGCACATCATCAGTACAGACG	0.458													11	19	---	---	---	---	PASS
ABLIM1	3983	broad.mit.edu	37	10	116232760	116232760	+	Silent	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:116232760T>C	uc010qsg.1	-	10	1350	c.1251A>G	c.(1249-1251)AAA>AAG	p.K417K	ABLIM1_uc010qsh.1_Silent_p.K385K|ABLIM1_uc010qsi.1_Silent_p.K357K|ABLIM1_uc010qsk.1_Silent_p.K341K|ABLIM1_uc009xyp.2_Silent_p.K379K|ABLIM1_uc010qsf.1_Silent_p.K129K|ABLIM1_uc009xyn.2_Silent_p.K68K|ABLIM1_uc010qsj.1_Silent_p.K94K|ABLIM1_uc009xyo.2_Silent_p.K265K	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a	417					axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		GTCTCTCCTGTTTGTCATCAT	0.403													44	14	---	---	---	---	PASS
MKI67	4288	broad.mit.edu	37	10	129913759	129913759	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:129913759C>G	uc001lke.2	-	7	1108	c.913G>C	c.(913-915)GAG>CAG	p.E305Q	MKI67_uc001lkf.2_Intron|MKI67_uc009yav.1_Intron|MKI67_uc009yaw.1_Intron	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	305					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GAAGCAGGCTCTGCCACAGCG	0.552													4	20	---	---	---	---	PASS
TCERG1L	256536	broad.mit.edu	37	10	133106547	133106547	+	Silent	SNP	A	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr10:133106547A>C	uc001lkp.2	-	3	683	c.597T>G	c.(595-597)GCT>GCG	p.A199A		NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	199										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		ACAGAGACACAGCTACTTGAT	0.522													21	8	---	---	---	---	PASS
MUC6	4588	broad.mit.edu	37	11	1020215	1020215	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:1020215G>T	uc001lsw.2	-	29	3734	c.3683C>A	c.(3682-3684)ACC>AAC	p.T1228N		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1228					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCCGATGGTGGTGGAGGTTCC	0.657													16	6	---	---	---	---	PASS
OR51M1	390059	broad.mit.edu	37	11	5411036	5411036	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:5411036G>T	uc010qzc.1	+	1	408	c.408G>T	c.(406-408)GTG>GTT	p.V136V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004756	NP_001004756	B2RNI9	B2RNI9_HUMAN	olfactory receptor, family 51, subfamily M,	136						integral to membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.98e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACCGCCTTGTGGCCATCTGCC	0.517													83	37	---	---	---	---	PASS
OR52H1	390067	broad.mit.edu	37	11	5566079	5566079	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:5566079G>T	uc010qzh.1	-	1	675	c.675C>A	c.(673-675)TCC>TCA	p.S225S	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	225	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGTGTGCGTAGGAAACAGCAA	0.507													4	28	---	---	---	---	PASS
FAR1	84188	broad.mit.edu	37	11	13729455	13729455	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:13729455T>C	uc001mld.2	+	4	529	c.374T>C	c.(373-375)GTT>GCT	p.V125A	FAR1_uc009ygp.2_Missense_Mutation_p.V125A	NM_032228	NP_115604	Q8WVX9	FACR1_HUMAN	fatty acyl CoA reductase 1	125					ether lipid biosynthetic process	integral to membrane|peroxisomal matrix|peroxisomal membrane	protein binding			ovary(1)|skin(1)	2						AGAGATGCTGTTCAGTTAAAT	0.343													16	1	---	---	---	---	PASS
SPON1	10418	broad.mit.edu	37	11	14280884	14280884	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:14280884C>A	uc001mle.2	+	13	2089	c.1551C>A	c.(1549-1551)TGC>TGA	p.C517*		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	517	TSP type-1 2.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		GCATCTCCTGCGGCATGGGCA	0.632													8	3	---	---	---	---	PASS
SLC6A5	9152	broad.mit.edu	37	11	20668427	20668427	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:20668427C>G	uc001mqd.2	+	14	2290	c.2017C>G	c.(2017-2019)CCT>GCT	p.P673A	SLC6A5_uc009yic.2_Missense_Mutation_p.P438A	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	673					synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	TGGATTCCAGCCTAACATCTT	0.433													23	12	---	---	---	---	PASS
SLC6A5	9152	broad.mit.edu	37	11	20668428	20668428	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:20668428C>G	uc001mqd.2	+	14	2291	c.2018C>G	c.(2017-2019)CCT>CGT	p.P673R	SLC6A5_uc009yic.2_Missense_Mutation_p.P438R	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	673					synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	GGATTCCAGCCTAACATCTTC	0.428													23	12	---	---	---	---	PASS
ANO3	63982	broad.mit.edu	37	11	26620410	26620410	+	Silent	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:26620410A>T	uc001mqt.3	+	16	1681	c.1536A>T	c.(1534-1536)ACA>ACT	p.T512T	ANO3_uc010rdr.1_Silent_p.T496T|ANO3_uc010rds.1_Silent_p.T351T|ANO3_uc010rdt.1_Silent_p.T366T	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	512	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CATAGGAAACACTTCGTCCCC	0.393													6	14	---	---	---	---	PASS
OR4C6	219432	broad.mit.edu	37	11	55433025	55433025	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:55433025T>A	uc001nht.3	+	3	648	c.383T>A	c.(382-384)CTG>CAG	p.L128Q	OR4C6_uc010rik.1_Missense_Mutation_p.L128Q	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	128	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TGTAAGCCCCTGCACTACACG	0.537													26	11	---	---	---	---	PASS
TMEM132A	54972	broad.mit.edu	37	11	60704035	60704035	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:60704035G>C	uc001nqj.2	+	11	2921	c.2728G>C	c.(2728-2730)GAC>CAC	p.D910H	TMEM132A_uc001nqi.2_Missense_Mutation_p.D911H|TMEM132A_uc001nqm.2_Missense_Mutation_p.D120H	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	910	Binds to HSPA5/GRP78 (By similarity).|Cytoplasmic (Potential).|Confers cellular localization similar to full-length form (By similarity).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						CCGCCAGCTGGACCGGCAGTC	0.721													3	7	---	---	---	---	PASS
INTS5	80789	broad.mit.edu	37	11	62416108	62416108	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:62416108C>A	uc001nud.2	-	2	1497	c.1444G>T	c.(1444-1446)GGA>TGA	p.G482*	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	482					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						CACAGCTCTCCAACATGGTTT	0.602													5	76	---	---	---	---	PASS
MRGPRF	116535	broad.mit.edu	37	11	68773711	68773711	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:68773711C>A	uc001ooo.3	-	3	434	c.67G>T	c.(67-69)GAG>TAG	p.E23*	MRGPRF_uc001oop.3_Nonsense_Mutation_p.E23*	NM_001098515	NP_001091985	Q96AM1	MRGRF_HUMAN	MAS-related GPR, member F	23	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TCCGGGGCCTCGCTCAGGCCA	0.667													3	9	---	---	---	---	PASS
ANO1	55107	broad.mit.edu	37	11	70009436	70009436	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:70009436G>A	uc001opj.2	+	19	2245	c.1940G>A	c.(1939-1941)CGA>CAA	p.R647Q	ANO1_uc001opk.1_Missense_Mutation_p.R589Q|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.R356Q	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	647	Extracellular (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						CGTTCCTTCCGAATGGAAGAG	0.517													10	13	---	---	---	---	PASS
DLG2	1740	broad.mit.edu	37	11	83344300	83344300	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:83344300C>A	uc001paj.2	-	14	1882	c.1579G>T	c.(1579-1581)GGG>TGG	p.G527W	DLG2_uc001pai.2_Missense_Mutation_p.G424W|DLG2_uc010rsy.1_Missense_Mutation_p.G494W|DLG2_uc010rsz.1_Missense_Mutation_p.G527W|DLG2_uc010rta.1_Missense_Mutation_p.G527W|DLG2_uc001pak.2_Missense_Mutation_p.G632W|DLG2_uc010rtb.1_Missense_Mutation_p.G494W|DLG2_uc001pal.1_Missense_Mutation_p.G527W|DLG2_uc010rsw.1_Missense_Mutation_p.G9W|DLG2_uc010rsx.1_Missense_Mutation_p.G8W	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	527						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GATCCGGACCCGGAGCTCATG	0.468													25	10	---	---	---	---	PASS
CNTN5	53942	broad.mit.edu	37	11	100061878	100061878	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:100061878G>T	uc001pga.2	+	14	1940	c.1601G>T	c.(1600-1602)GGG>GTG	p.G534V	CNTN5_uc009ywv.1_Missense_Mutation_p.G534V|CNTN5_uc001pfz.2_Missense_Mutation_p.G534V|CNTN5_uc001pgb.2_Missense_Mutation_p.G460V|CNTN5_uc010ruk.1_5'UTR	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	534	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CTTCCAGACGGGAGTCTACGG	0.368													18	11	---	---	---	---	PASS
GRIA4	2893	broad.mit.edu	37	11	105623843	105623843	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:105623843C>G	uc001pix.2	+	4	830	c.384C>G	c.(382-384)AGC>AGG	p.S128R	GRIA4_uc001piu.1_Missense_Mutation_p.S128R|GRIA4_uc001piw.2_Missense_Mutation_p.S128R|GRIA4_uc001piv.2_Missense_Mutation_p.S128R|GRIA4_uc009yxk.1_Missense_Mutation_p.S128R	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	128	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	AGGGGGAGAGCCAGTTTGTGC	0.473													26	11	---	---	---	---	PASS
GRIA4	2893	broad.mit.edu	37	11	105795143	105795143	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:105795143G>T	uc001pix.2	+	12	1941	c.1495G>T	c.(1495-1497)GCC>TCC	p.A499S	GRIA4_uc001piw.2_Missense_Mutation_p.A499S	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	499	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	GATTGCTATTGCCCCTCTGAC	0.383													36	10	---	---	---	---	PASS
GUCY1A2	2977	broad.mit.edu	37	11	106680751	106680751	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:106680751C>G	uc001pjg.1	-	5	2050	c.1660G>C	c.(1660-1662)GAC>CAC	p.D554H	GUCY1A2_uc010rvo.1_Missense_Mutation_p.D575H|GUCY1A2_uc009yxn.1_Missense_Mutation_p.D554H	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	554	Guanylate cyclase.				intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CACTGGTGGTCAAATCTGGTG	0.358													4	18	---	---	---	---	PASS
EXPH5	23086	broad.mit.edu	37	11	108380315	108380315	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:108380315G>T	uc001pkk.2	-	6	6030	c.5919C>A	c.(5917-5919)ACC>ACA	p.T1973T	EXPH5_uc010rvy.1_Silent_p.T1785T|EXPH5_uc010rvz.1_Silent_p.T1817T|EXPH5_uc010rwa.1_Silent_p.T1897T	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1973					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		CATCATCTGTGGTTGTGTCTG	0.403													6	76	---	---	---	---	PASS
BACE1	23621	broad.mit.edu	37	11	117160476	117160476	+	Silent	SNP	A	G	G	rs138594731	byFrequency	TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:117160476A>G	uc001pqz.2	-	9	1773	c.1312T>C	c.(1312-1314)TTG>CTG	p.L438L	BACE1_uc001pqw.2_Silent_p.L413L|BACE1_uc001pqx.2_Silent_p.L369L|BACE1_uc001pqy.2_Silent_p.L394L|BACE1_uc010rxg.1_Silent_p.L313L|BACE1_uc010rxh.1_Silent_p.L338L|uc010rxi.1_5'Flank	NM_012104	NP_036236	P56817	BACE1_HUMAN	beta-site APP-cleaving enzyme 1 isoform A	438	Extracellular (Potential).				beta-amyloid metabolic process|membrane protein ectodomain proteolysis	cell surface|cytoplasmic vesicle membrane|endoplasmic reticulum|endosome|integral to plasma membrane|trans-Golgi network	aspartic-type endopeptidase activity|beta-aspartyl-peptidase activity|protein binding			ovary(1)	1	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000563)|all cancers(92;0.0032)		TCCATGTCCAAGGTGACAAAA	0.368													15	7	---	---	---	---	PASS
OR8A1	390275	broad.mit.edu	37	11	124440879	124440879	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:124440879C>A	uc010san.1	+	1	915	c.915C>A	c.(913-915)ATC>ATA	p.I305I		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	305	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		ATCCCCTAATCTACAGCCTGA	0.443													20	8	---	---	---	---	PASS
PATE1	160065	broad.mit.edu	37	11	125618497	125618497	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:125618497G>T	uc001qct.2	+	5	262	c.250G>T	c.(250-252)GAT>TAT	p.D84Y	PATE1_uc009zbr.2_Missense_Mutation_p.D72Y	NM_138294	NP_612151	Q8WXA2	PATE1_HUMAN	expressed in prostate and testis precursor	84						extracellular region					0						CTCCACAGGGGATGGTAATCC	0.448													13	8	---	---	---	---	PASS
FAM118B	79607	broad.mit.edu	37	11	126126634	126126634	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:126126634G>T	uc001qdf.2	+	7	1052	c.869G>T	c.(868-870)CGA>CTA	p.R290L	FAM118B_uc009zca.2_Missense_Mutation_p.R294L|FAM118B_uc001qdg.2_Missense_Mutation_p.R290L	NM_024556	NP_078832	Q9BPY3	F118B_HUMAN	hypothetical protein LOC79607	290											0	all_hematologic(175;0.145)	Breast(109;0.00156)|Lung NSC(97;0.00948)|all_lung(97;0.0101)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0784)		AAAAAGCTTCGAGAAAACATG	0.443													4	99	---	---	---	---	PASS
ZNF705A	440077	broad.mit.edu	37	12	8330139	8330139	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:8330139T>A	uc001qud.1	+	5	935	c.863T>A	c.(862-864)CTA>CAA	p.L288Q	FAM66C_uc001que.3_5'Flank|FAM66C_uc001quf.3_5'Flank|FAM66C_uc009zgc.2_5'Flank|FAM66C_uc001qug.3_5'Flank	NM_001004328	NP_001004328	Q6ZN79	Z705A_HUMAN	zinc finger protein 705A	288					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				Kidney(36;0.0877)		GCTTGTCTTCTATGTGGGAAG	0.418													9	46	---	---	---	---	PASS
CLEC4E	26253	broad.mit.edu	37	12	8689737	8689737	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:8689737C>A	uc001quo.1	-	4	511	c.346G>T	c.(346-348)GTG>TTG	p.V116L		NM_014358	NP_055173	Q9ULY5	CLC4E_HUMAN	C-type lectin domain family 4, member E	116	C-type lectin.|Extracellular (Potential).					integral to membrane	sugar binding			central_nervous_system(1)	1	Lung SC(5;0.184)					TTGATAACCACCAGGTGAGCC	0.478													20	14	---	---	---	---	PASS
CLEC1B	51266	broad.mit.edu	37	12	10149584	10149584	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:10149584C>A	uc001qwu.2	-	4	499	c.299G>T	c.(298-300)AGC>ATC	p.S100I	CLEC1B_uc009zhd.2_Missense_Mutation_p.S67I	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	100	Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						GTCACAGGGGCTGCATTTATG	0.413													33	44	---	---	---	---	PASS
ATF7IP	55729	broad.mit.edu	37	12	14633957	14633957	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:14633957A>G	uc001rbw.2	+	13	3276	c.3118A>G	c.(3118-3120)ACA>GCA	p.T1040A	ATF7IP_uc001rbv.1_Missense_Mutation_p.T1039A|ATF7IP_uc001rbx.2_Missense_Mutation_p.T1039A|ATF7IP_uc001rby.3_Missense_Mutation_p.T1040A|ATF7IP_uc001rca.2_Missense_Mutation_p.T1040A	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1040					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						CGTGAATGTAACACATCGTCC	0.423													41	65	---	---	---	---	PASS
FAM60A	58516	broad.mit.edu	37	12	31448254	31448254	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:31448254G>T	uc010sjz.1	-	3	381	c.142C>A	c.(142-144)CGT>AGT	p.R48S	FAM60A_uc001rkd.2_Missense_Mutation_p.R48S|FAM60A_uc010ska.1_Missense_Mutation_p.R48S|FAM60A_uc001rke.2_Missense_Mutation_p.R48S|FAM60A_uc010skb.1_Intron|FAM60A_uc001rkc.2_Missense_Mutation_p.R73S	NM_021238	NP_067061	Q9NP50	FA60A_HUMAN	family with sequence similarity 60, member A	48											0	all_cancers(9;5.22e-13)|all_epithelial(9;4e-13)|all_lung(12;1.2e-11)|Lung NSC(12;2.17e-09)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0207)|Lung SC(12;0.0592)|Esophageal squamous(101;0.162)					TCTCCTGAACGAGTCTCATGC	0.383													4	44	---	---	---	---	PASS
LRRK2	120892	broad.mit.edu	37	12	40692290	40692290	+	Missense_Mutation	SNP	A	T	T	rs35808389		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:40692290A>T	uc001rmg.3	+	24	3463	c.3342A>T	c.(3340-3342)TTA>TTT	p.L1114F	LRRK2_uc001rmh.1_Missense_Mutation_p.L736F|LRRK2_uc009zjw.2_5'UTR	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1114	LRR 6.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AGCTCATTTTAGAAGGGTAAG	0.343													46	61	---	---	---	---	PASS
PPHLN1	51535	broad.mit.edu	37	12	42729762	42729762	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:42729762C>A	uc001rng.1	+	2	163	c.58C>A	c.(58-60)CGA>AGA	p.R20R	PPHLN1_uc001rmy.2_Silent_p.R38R|PPHLN1_uc001rna.2_Silent_p.R27R|PPHLN1_uc001rne.2_Silent_p.R27R|PPHLN1_uc001rnb.2_Silent_p.R27R|PPHLN1_uc001rnd.2_Silent_p.R27R|PPHLN1_uc001rnc.2_Silent_p.R20R|PPHLN1_uc001rnf.2_Silent_p.R20R|PPHLN1_uc010skq.1_Silent_p.R20R|PPHLN1_uc010skr.1_Silent_p.R20R|PPHLN1_uc010sks.1_Silent_p.R20R|PPHLN1_uc010skt.1_Intron|PPHLN1_uc001rni.1_Silent_p.R20R|PPHLN1_uc001rnh.1_RNA|PPHLN1_uc010sku.1_Silent_p.R27R	NM_016488	NP_057572	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 1	20					keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		AGCACCTCCTCGAAGTCATCC	0.368													4	97	---	---	---	---	PASS
KCNH3	23416	broad.mit.edu	37	12	49949466	49949466	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:49949466G>C	uc001ruh.1	+	12	2460	c.2200G>C	c.(2200-2202)GAT>CAT	p.D734H	KCNH3_uc010smj.1_Missense_Mutation_p.D674H	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	734	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						GAAGGAGACAGATGGGGAGCA	0.637													5	20	---	---	---	---	PASS
KRT84	3890	broad.mit.edu	37	12	52778981	52778981	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:52778981C>A	uc001sah.1	-	1	437	c.389G>T	c.(388-390)GGA>GTA	p.G130V		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	130	Head.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TGCTGGGACTCCAACCCCTCC	0.572													58	81	---	---	---	---	PASS
KRT74	121391	broad.mit.edu	37	12	52962040	52962040	+	Missense_Mutation	SNP	C	G	G	rs139298074		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:52962040C>G	uc001sap.1	-	7	1316	c.1268G>C	c.(1267-1269)CGC>CCC	p.R423P		NM_175053	NP_778223	Q7RTS7	K2C74_HUMAN	keratin 6 irs4	423	Rod.|Coil 2.					keratin filament	structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.191)		CTGGTACTCGCGCAGCATCCG	0.652													24	44	---	---	---	---	PASS
KRT74	121391	broad.mit.edu	37	12	52967522	52967522	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:52967522C>A	uc001sap.1	-	1	88	c.40G>T	c.(40-42)GGC>TGC	p.G14C		NM_175053	NP_778223	Q7RTS7	K2C74_HUMAN	keratin 6 irs4	14	Head.|Gly-rich.					keratin filament	structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.191)		CTGAAGTTGCCCTTGTCACCA	0.557													32	37	---	---	---	---	PASS
KRT77	374454	broad.mit.edu	37	12	53091506	53091506	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:53091506C>A	uc001saw.2	-	2	747	c.718G>T	c.(718-720)GTC>TTC	p.V240F	KRT77_uc009zmi.2_5'UTR	NM_175078	NP_778253	Q7Z794	K2C1B_HUMAN	keratin 77	240	Coil 1B.|Rod.					keratin filament	structural molecule activity			ovary(1)	1						ATGCTCCTGACCTCCGCGTTC	0.592													30	331	---	---	---	---	PASS
OR6C75	390323	broad.mit.edu	37	12	55759748	55759748	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:55759748C>T	uc010spk.1	+	1	854	c.854C>T	c.(853-855)CCC>CTC	p.P285L		NM_001005497	NP_001005497	A6NL08	O6C75_HUMAN	olfactory receptor, family 6, subfamily C,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3						CTCTTGAATCCCTTCATATAC	0.383													12	49	---	---	---	---	PASS
MON2	23041	broad.mit.edu	37	12	62894643	62894643	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:62894643G>T	uc001sre.2	+	6	1037	c.646G>T	c.(646-648)GCA>TCA	p.A216S	MON2_uc009zqj.2_Missense_Mutation_p.A216S|MON2_uc010ssl.1_Missense_Mutation_p.A144S|MON2_uc010ssm.1_Missense_Mutation_p.A216S|MON2_uc010ssn.1_Missense_Mutation_p.A216S|MON2_uc001srf.2_5'Flank|MON2_uc001srd.1_Missense_Mutation_p.A108S	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	216					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TGCTAAAGATGCATATATGCT	0.303													32	41	---	---	---	---	PASS
MON2	23041	broad.mit.edu	37	12	62894645	62894645	+	Silent	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:62894645A>T	uc001sre.2	+	6	1039	c.648A>T	c.(646-648)GCA>GCT	p.A216A	MON2_uc009zqj.2_Silent_p.A216A|MON2_uc010ssl.1_Silent_p.A144A|MON2_uc010ssm.1_Silent_p.A216A|MON2_uc010ssn.1_Silent_p.A216A|MON2_uc001srf.2_5'Flank|MON2_uc001srd.1_Silent_p.A108A	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	216					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		CTAAAGATGCATATATGCTTT	0.294													32	41	---	---	---	---	PASS
PTPRR	5801	broad.mit.edu	37	12	71095029	71095029	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:71095029G>A	uc001swi.1	-	7	1498	c.1082C>T	c.(1081-1083)ACA>ATA	p.T361I	PTPRR_uc001swh.1_Missense_Mutation_p.T116I|PTPRR_uc009zrs.2_Missense_Mutation_p.T210I|PTPRR_uc010stq.1_Missense_Mutation_p.T249I|PTPRR_uc010str.1_Missense_Mutation_p.T210I	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	361	Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		CTCCCGTGGTGTTGGTATAGA	0.463													6	78	---	---	---	---	PASS
E2F7	144455	broad.mit.edu	37	12	77419463	77419463	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:77419463G>A	uc001sym.3	-	12	2676	c.2440C>T	c.(2440-2442)CCT>TCT	p.P814S	E2F7_uc009zse.2_Intron	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	814					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						TGAAGCTGAGGGTCTGCAGAA	0.537													17	52	---	---	---	---	PASS
MGAT4C	25834	broad.mit.edu	37	12	86373490	86373490	+	Silent	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:86373490A>T	uc001tai.3	-	8	2264	c.1014T>A	c.(1012-1014)CCT>CCA	p.P338P	MGAT4C_uc001tal.3_Silent_p.P338P|MGAT4C_uc001taj.3_Silent_p.P338P|MGAT4C_uc001tak.3_Silent_p.P338P|MGAT4C_uc010sum.1_Silent_p.P362P|MGAT4C_uc001tah.3_Silent_p.P338P	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	338	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						GGGGGTTATCAGGAATGTCAA	0.408													20	34	---	---	---	---	PASS
FGD6	55785	broad.mit.edu	37	12	95488424	95488424	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:95488424T>A	uc001tdp.3	-	15	3768	c.3544A>T	c.(3544-3546)ATA>TTA	p.I1182L	FGD6_uc009zsx.2_Missense_Mutation_p.I315L|FGD6_uc001tdq.1_Missense_Mutation_p.I218L	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	1182	PH 1.				actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						TACTCTTCTATTGCCCTGGAA	0.378													12	44	---	---	---	---	PASS
NUP37	79023	broad.mit.edu	37	12	102492903	102492903	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:102492903T>A	uc001tjc.2	-	4	495	c.430A>T	c.(430-432)AGT>TGT	p.S144C	NUP37_uc009zub.1_Missense_Mutation_p.S144C	NM_024057	NP_076962	Q8NFH4	NUP37_HUMAN	nucleoporin 37kDa	144	WD 2.				carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			ovary(1)	1						TGATCGTCACTCACACTTGCA	0.343													18	20	---	---	---	---	PASS
KIAA1033	23325	broad.mit.edu	37	12	105551091	105551091	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:105551091A>G	uc001tld.2	+	28	2990	c.2903A>G	c.(2902-2904)AAA>AGA	p.K968R	KIAA1033_uc010swr.1_Missense_Mutation_p.K969R|KIAA1033_uc010sws.1_Missense_Mutation_p.K780R	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	968					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						GAAACATTAAAAGCAGCAAGG	0.303													26	31	---	---	---	---	PASS
SSH1	54434	broad.mit.edu	37	12	109201450	109201450	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:109201450C>A	uc001tnm.2	-	8	777	c.690G>T	c.(688-690)CTG>CTT	p.L230L	SSH1_uc001tnl.2_5'Flank|SSH1_uc010sxg.1_Silent_p.L241L|SSH1_uc001tnn.3_Silent_p.L230L|SSH1_uc001tno.1_Silent_p.L134L	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	230				L -> P (in Ref. 1; BAB84116).	actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						GCGTAGACTCCAGGTCCTGCA	0.617													6	49	---	---	---	---	PASS
C12orf51	283450	broad.mit.edu	37	12	112688130	112688130	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:112688130C>A	uc009zwc.2	-	18	2520	c.2502G>T	c.(2500-2502)CCG>CCT	p.P834P	C12orf51_uc010syk.1_Silent_p.P656P|C12orf51_uc001tts.2_Silent_p.P647P|C12orf51_uc001ttt.3_Silent_p.P645P	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GAGAGGGGCTCGGAGTAAGGG	0.542													4	55	---	---	---	---	PASS
SDS	10993	broad.mit.edu	37	12	113837484	113837484	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:113837484C>A	uc001tvg.2	-	2	152	c.30G>T	c.(28-30)AAG>AAT	p.K10N	SDS_uc001tvh.1_Missense_Mutation_p.K10N	NM_006843	NP_006834	P20132	SDHL_HUMAN	serine dehydratase	10					gluconeogenesis|L-serine catabolic process|pyruvate biosynthetic process	cytoplasm	L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|protein homodimerization activity|pyridoxal phosphate binding			pancreas(1)	1					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	GGATGGGGGTCTTCACGTGCA	0.602													6	7	---	---	---	---	PASS
P2RX7	5027	broad.mit.edu	37	12	121592748	121592748	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:121592748C>A	uc001tzm.2	+	2	382	c.286C>A	c.(286-288)CCT>ACT	p.P96T	P2RX7_uc001tzn.2_5'UTR|P2RX7_uc001tzo.2_RNA|P2RX7_uc001tzp.2_5'UTR|P2RX7_uc001tzq.2_5'UTR	NM_002562	NP_002553	Q99572	P2RX7_HUMAN	purinergic receptor P2X7	96						integral to membrane	ATP binding|ion channel activity|receptor activity			large_intestine(2)|lung(1)|breast(1)|skin(1)	5	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CTACACCTTCCCTTTGCAGGT	0.567													5	64	---	---	---	---	PASS
DNAH10	196385	broad.mit.edu	37	12	124317842	124317842	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:124317842A>G	uc001uft.3	+	26	4398	c.4373A>G	c.(4372-4374)CAA>CGA	p.Q1458R		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1458	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		CCTTTTCTGCAAACTGTTCAC	0.423													17	18	---	---	---	---	PASS
TMEM132D	121256	broad.mit.edu	37	12	129558710	129558710	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:129558710G>T	uc009zyl.1	-	9	3338	c.3010C>A	c.(3010-3012)CTC>ATC	p.L1004I	TMEM132D_uc001uia.2_Missense_Mutation_p.L542I	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	1004	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TTTGTGCTGAGGAGATATTTA	0.463													5	68	---	---	---	---	PASS
SACS	26278	broad.mit.edu	37	13	23906110	23906110	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:23906110G>A	uc001uon.2	-	10	12494	c.11905C>T	c.(11905-11907)CTT>TTT	p.L3969F	SACS_uc001uoo.2_Missense_Mutation_p.L3822F|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3969					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CGAGGTCTAAGTTTTTGAGGA	0.393													10	76	---	---	---	---	PASS
MIPEP	4285	broad.mit.edu	37	13	24380178	24380178	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:24380178G>T	uc001uox.3	-	16	1859	c.1759C>A	c.(1759-1761)CAT>AAT	p.H587N		NM_005932	NP_005923	Q99797	MIPEP_HUMAN	mitochondrial intermediate peptidase precursor	587					protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)		TGCTTCCCATGGTAGATTTGA	0.413													6	83	---	---	---	---	PASS
PARP4	143	broad.mit.edu	37	13	25026687	25026687	+	Silent	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:25026687G>C	uc001upl.2	-	24	2977	c.2871C>G	c.(2869-2871)CTC>CTG	p.L957L	PARP4_uc010tdc.1_Silent_p.L957L	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	957	VWFA.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		TAAGATATCGGAGTGTTTTCC	0.493													39	42	---	---	---	---	PASS
PAN3	255967	broad.mit.edu	37	13	28794441	28794441	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:28794441C>A	uc001urz.2	+	5	496	c.488C>A	c.(487-489)TCA>TAA	p.S163*	PAN3_uc010tdo.1_Nonsense_Mutation_p.S309*|PAN3_uc001ury.2_5'UTR|PAN3_uc001urx.2_Nonsense_Mutation_p.S109*	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	309	Interaction with polyadenylate-binding protein.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		GTGTCCCAGTCAAATATGTCT	0.428													34	203	---	---	---	---	PASS
KL	9365	broad.mit.edu	37	13	33638087	33638087	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:33638087T>A	uc001uus.2	+	5	2811	c.2803T>A	c.(2803-2805)TTT>ATT	p.F935I		NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	935	Glycosyl hydrolase-1 2.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		TGCAGATCAGTTTGAGCCCAA	0.448													40	32	---	---	---	---	PASS
NBEA	26960	broad.mit.edu	37	13	35517158	35517158	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:35517158C>T	uc001uvb.2	+	2	407	c.201C>T	c.(199-201)ATC>ATT	p.I67I		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	67						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CGGTGCCGATCCGCAACATCC	0.532													20	44	---	---	---	---	PASS
FREM2	341640	broad.mit.edu	37	13	39271908	39271908	+	Silent	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:39271908T>C	uc001uwv.2	+	2	5556	c.5247T>C	c.(5245-5247)TTT>TTC	p.F1749F		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1749	Extracellular (Potential).|CSPG 12.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TGTTCTATTTTGCAGTTGAAG	0.393													4	33	---	---	---	---	PASS
KIAA0564	23078	broad.mit.edu	37	13	42385440	42385440	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:42385440G>C	uc001uyj.2	-	17	2054	c.1984C>G	c.(1984-1986)CTG>GTG	p.L662V	KIAA0564_uc001uyk.2_Missense_Mutation_p.L662V	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	662						extracellular region	ATP binding|ATPase activity	p.L662L(1)		ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		ATTCGCAACAGTTGTCTGGTA	0.393													4	73	---	---	---	---	PASS
COG3	83548	broad.mit.edu	37	13	46085956	46085956	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:46085956A>T	uc001vak.2	+	16	1877	c.1776A>T	c.(1774-1776)TTA>TTT	p.L592F	COG3_uc001vaj.1_Missense_Mutation_p.L592F|COG3_uc010tfv.1_Missense_Mutation_p.L429F|COG3_uc010aci.2_Missense_Mutation_p.L368F	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3	592					ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		TTCAGTCCTTACTTGGAGCGT	0.398													17	16	---	---	---	---	PASS
PCDH9	5101	broad.mit.edu	37	13	67800610	67800610	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:67800610G>T	uc001vik.2	-	2	2655	c.1963C>A	c.(1963-1965)CGT>AGT	p.R655S	PCDH9_uc001vil.2_Missense_Mutation_p.R655S|PCDH9_uc010thl.1_Missense_Mutation_p.R655S|PCDH9_uc001vin.3_Missense_Mutation_p.R655S	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	655	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GTAGAGGAACGAGGTGGTTGT	0.433													4	60	---	---	---	---	PASS
LMO7	4008	broad.mit.edu	37	13	76382282	76382282	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:76382282G>T	uc001vjv.2	+	7	1924	c.1164G>T	c.(1162-1164)GAG>GAT	p.E388D	LMO7_uc010thv.1_Intron|LMO7_uc001vjt.1_Intron|LMO7_uc010thw.1_Intron|LMO7_uc001vjw.1_Missense_Mutation_p.E294D	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	673						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		AGAGATGGGAGGCCATCCGGG	0.532													16	17	---	---	---	---	PASS
LIG4	3981	broad.mit.edu	37	13	108861116	108861116	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:108861116T>A	uc001vqn.2	-	2	2774	c.2501A>T	c.(2500-2502)GAG>GTG	p.E834V	LIG4_uc001vqo.2_Missense_Mutation_p.E834V|LIG4_uc010agg.1_Missense_Mutation_p.E767V|LIG4_uc010agf.2_Missense_Mutation_p.E834V|LIG4_uc001vqp.2_Missense_Mutation_p.E834V	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	834	BRCT 2.				cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					CCTTGTCCCCTCATTTTTGGT	0.428								NHEJ					21	33	---	---	---	---	PASS
OR4Q3	441669	broad.mit.edu	37	14	20215703	20215703	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:20215703C>A	uc010tkt.1	+	1	117	c.117C>A	c.(115-117)GTC>GTA	p.V39V		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTGCTATTGTCCTGGGAAACC	0.383													41	43	---	---	---	---	PASS
OR4Q3	441669	broad.mit.edu	37	14	20215704	20215704	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:20215704C>G	uc010tkt.1	+	1	118	c.118C>G	c.(118-120)CTG>GTG	p.L40V		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.L40L(3)		breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGCTATTGTCCTGGGAAACCT	0.388													44	41	---	---	---	---	PASS
AP4S1	11154	broad.mit.edu	37	14	31549788	31549788	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:31549788G>T	uc001wqy.3	+	5	686	c.304G>T	c.(304-306)GAT>TAT	p.D102Y	AP4S1_uc001wqw.3_Missense_Mutation_p.D102Y|AP4S1_uc001wqx.3_Missense_Mutation_p.D102Y|AP4S1_uc010amh.2_Intron|AP4S1_uc001wqz.3_Intron	NM_001128126	NP_001121598	Q9Y587	AP4S1_HUMAN	adaptor-related protein complex 4, sigma 1	102						coated pit|Golgi apparatus	protein transporter activity				0	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.221)	GBM - Glioblastoma multiforme(265;0.00553)		GAGTGAATTAGATGTATCCTT	0.443													4	22	---	---	---	---	PASS
SLC10A1	6554	broad.mit.edu	37	14	70245986	70245986	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:70245986G>T	uc001xlr.2	-	3	793	c.659C>A	c.(658-660)CCA>CAA	p.P220Q		NM_003049	NP_003040	Q14973	NTCP_HUMAN	solute carrier family 10, member 1	220	Helical; (Potential).				bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(1)	1				all cancers(60;0.00228)|BRCA - Breast invasive adenocarcinoma(234;0.0137)|OV - Ovarian serous cystadenocarcinoma(108;0.0226)		AATCAAGAGTGGTGTCATGGC	0.488													5	34	---	---	---	---	PASS
TMEM63C	57156	broad.mit.edu	37	14	77686394	77686394	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:77686394C>A	uc001xtf.2	+	5	488	c.276C>A	c.(274-276)CCC>CCA	p.P92P	TMEM63C_uc010asq.1_Silent_p.P92P	NM_020431	NP_065164	Q9P1W3	TM63C_HUMAN	transmembrane protein 63C	92						integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0342)		AGACATCTCCCTCGGAGACTT	0.547													3	5	---	---	---	---	PASS
ADCK1	57143	broad.mit.edu	37	14	78353520	78353520	+	Silent	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:78353520G>C	uc001xui.2	+	5	609	c.510G>C	c.(508-510)GGG>GGC	p.G170G	ADCK1_uc010tvo.1_Intron|ADCK1_uc001xuj.2_Silent_p.G102G|ADCK1_uc001xuk.1_Silent_p.G44G	NM_020421	NP_065154	Q86TW2	ADCK1_HUMAN	aarF domain containing kinase 1 isoform a	177	Protein kinase.					extracellular region	ATP binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)	3			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0376)		TGCATGATGGGCGGACGGTGG	0.607													17	5	---	---	---	---	PASS
NRXN3	9369	broad.mit.edu	37	14	80130287	80130287	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:80130287C>A	uc001xun.2	+	14	2983	c.2492C>A	c.(2491-2493)CCT>CAT	p.P831H	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Missense_Mutation_p.P199H|NRXN3_uc010asw.2_Missense_Mutation_p.P199H|NRXN3_uc001xur.3_Missense_Mutation_p.P199H	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1204	Extracellular (Potential).|Laminin G-like 6.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GAACATTATCCTACAGGTACA	0.478													12	3	---	---	---	---	PASS
CINP	51550	broad.mit.edu	37	14	102816311	102816311	+	Silent	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr14:102816311A>G	uc001ylv.1	-	4	446	c.381T>C	c.(379-381)TAT>TAC	p.Y127Y	CINP_uc001ylu.1_RNA	NM_032630	NP_116019	Q9BW66	CINP_HUMAN	cyclin-dependent kinase 2-interacting protein	127					cell cycle|cell division|DNA repair|DNA replication	nucleus	protein binding			large_intestine(1)	1						TCTCCTCCCCATAATGGTAGT	0.408													23	13	---	---	---	---	PASS
VPS39	23339	broad.mit.edu	37	15	42459085	42459085	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:42459085C>A	uc001zpd.2	-	15	1588	c.1437G>T	c.(1435-1437)TTG>TTT	p.L479F	VPS39_uc001zpc.2_Missense_Mutation_p.L468F|VPS39_uc001zpb.2_5'Flank	NM_015289	NP_056104	Q96JC1	VPS39_HUMAN	vacuolar protein sorting 39	479					protein transport	HOPS complex|late endosome membrane|lysosomal membrane	small GTPase regulator activity			ovary(1)|pancreas(1)|skin(1)	3		all_cancers(109;6.78e-16)|all_epithelial(112;1.81e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;3.05e-06)		CCAGGCGTAGCAAGGGGGCCA	0.562													10	28	---	---	---	---	PASS
SLC30A4	7782	broad.mit.edu	37	15	45814396	45814396	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:45814396C>A	uc001zvj.2	-	2	469	c.157G>T	c.(157-159)GAC>TAC	p.D53Y	C15orf21_uc010beg.1_Intron|C15orf21_uc010beh.1_Intron|C15orf21_uc010bei.1_Intron|C15orf21_uc010bej.1_Intron|C15orf21_uc001zvm.1_Intron|C15orf21_uc001zvn.1_Intron	NM_013309	NP_037441	O14863	ZNT4_HUMAN	solute carrier family 30 (zinc transporter),	53	Cytoplasmic (Potential).|Asp-rich (acidic).				regulation of sequestering of zinc ion|response to toxin	endosome membrane|integral to membrane|late endosome	zinc ion transmembrane transporter activity				0		Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.58e-16)|GBM - Glioblastoma multiforme(94;2.15e-06)		TCGGAACCGTCATCGGCCACC	0.572													21	30	---	---	---	---	PASS
SEMA6D	80031	broad.mit.edu	37	15	48056121	48056121	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:48056121G>C	uc010bek.2	+	10	1182	c.822G>C	c.(820-822)TGG>TGC	p.W274C	SEMA6D_uc001zvw.2_Missense_Mutation_p.W274C|SEMA6D_uc001zvx.1_Missense_Mutation_p.W274C|SEMA6D_uc001zvy.2_Missense_Mutation_p.W274C|SEMA6D_uc001zvz.2_Missense_Mutation_p.W274C|SEMA6D_uc001zwa.2_Missense_Mutation_p.W274C|SEMA6D_uc001zwb.2_Missense_Mutation_p.W274C|SEMA6D_uc001zwc.2_Missense_Mutation_p.W274C	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	274	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		AGAAACACTGGACTTCATTTC	0.468													32	48	---	---	---	---	PASS
ATP8B4	79895	broad.mit.edu	37	15	50190438	50190438	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:50190438A>G	uc001zxu.2	-	22	2442	c.2300T>C	c.(2299-2301)CTA>CCA	p.L767P	ATP8B4_uc010ber.2_Missense_Mutation_p.L640P|ATP8B4_uc010ufd.1_Missense_Mutation_p.L577P|ATP8B4_uc010ufe.1_RNA|ATP8B4_uc001zxv.1_Missense_Mutation_p.L65P	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	767	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		ATCACTTTCTAGGGCATGAGC	0.383													15	17	---	---	---	---	PASS
UNC13C	440279	broad.mit.edu	37	15	54305821	54305821	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:54305821G>A	uc002ack.2	+	1	721	c.721G>A	c.(721-723)GAT>AAT	p.D241N		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	241					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		CCAAACACATGATGTCATGGA	0.448													42	49	---	---	---	---	PASS
UNC13C	440279	broad.mit.edu	37	15	54305932	54305932	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:54305932T>A	uc002ack.2	+	1	832	c.832T>A	c.(832-834)TCC>ACC	p.S278T		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	278					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		CGATGAGATCTCCAGCAGTGT	0.438													42	67	---	---	---	---	PASS
UNC13C	440279	broad.mit.edu	37	15	54592473	54592473	+	Silent	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:54592473G>C	uc002ack.2	+	11	4170	c.4170G>C	c.(4168-4170)GGG>GGC	p.G1390G	UNC13C_uc002acl.2_Silent_p.G220G	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1390					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AAGTCAAAGGGGATGAAGCCT	0.368													9	5	---	---	---	---	PASS
SLTM	79811	broad.mit.edu	37	15	59225621	59225621	+	Silent	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:59225621G>C	uc002afp.2	-	1	232	c.144C>G	c.(142-144)CTC>CTG	p.L48L	SLTM_uc002afo.2_Silent_p.L48L|SLTM_uc002afq.2_5'UTR|SLTM_uc010bgd.2_5'UTR|SLTM_uc002afr.1_Silent_p.L48L	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	48	SAP.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						GTCGGGAGATGAGCACGGTCT	0.637													3	7	---	---	---	---	PASS
CILP	8483	broad.mit.edu	37	15	65499327	65499327	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:65499327G>T	uc002aon.2	-	4	398	c.217C>A	c.(217-219)CGG>AGG	p.R73R		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	73					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix		p.R73Q(1)		ovary(4)|pancreas(2)|skin(1)	7						GCGTCCAGCCGCTCATAGTCG	0.612													7	15	---	---	---	---	PASS
PIAS1	8554	broad.mit.edu	37	15	68378917	68378917	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:68378917G>T	uc002aqz.2	+	2	394	c.298G>T	c.(298-300)GAT>TAT	p.D100Y	PIAS1_uc010ujx.1_Missense_Mutation_p.D100Y	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	100					androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						ACTCACTTACGATGGTCACCC	0.478													4	114	---	---	---	---	PASS
MSLNL	401827	broad.mit.edu	37	16	823224	823224	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:823224G>A	uc002cjz.1	-	10	2044	c.2044C>T	c.(2044-2046)CTG>TTG	p.L682L		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	331	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						CAGCCATCCAGGCAGGACTCA	0.632													21	14	---	---	---	---	PASS
TELO2	9894	broad.mit.edu	37	16	1557674	1557674	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:1557674G>T	uc002cly.2	+	20	2655	c.2364G>T	c.(2362-2364)GAG>GAT	p.E788D		NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	788						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				GCCTGCTGGAGGACCTGATGG	0.662													4	8	---	---	---	---	PASS
ABCA3	21	broad.mit.edu	37	16	2331382	2331382	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:2331382C>A	uc002cpy.1	-	27	4876	c.4164G>T	c.(4162-4164)AAG>AAT	p.K1388N	ABCA3_uc010bsk.1_Missense_Mutation_p.K1330N	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1388	ABC transporter 2.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				GCAAGGGTACCTTGGAGAGCT	0.607													5	62	---	---	---	---	PASS
ZNF213	7760	broad.mit.edu	37	16	3187644	3187644	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:3187644G>A	uc010uws.1	+	2	810	c.363G>A	c.(361-363)GAG>GAA	p.E121E	ZNF213_uc002cud.2_RNA|ZNF213_uc010btf.2_Silent_p.E121E|ZNF213_uc010bth.2_Silent_p.E121E|ZNF213_uc010uwt.1_Silent_p.E121E	NM_004220	NP_004211	O14771	ZN213_HUMAN	zinc finger protein 213	121	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCTTGGTGGAGGACCTACAGA	0.627													8	4	---	---	---	---	PASS
NLRC3	197358	broad.mit.edu	37	16	3614540	3614540	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:3614540C>T	uc010btn.2	-	5	809	c.398G>A	c.(397-399)CGG>CAG	p.R133Q		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	133					I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						GACAGACACCCGGGAGAGAGG	0.701													7	11	---	---	---	---	PASS
NLRC3	197358	broad.mit.edu	37	16	3614541	3614541	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:3614541G>T	uc010btn.2	-	5	808	c.397C>A	c.(397-399)CGG>AGG	p.R133R		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	133					I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						ACAGACACCCGGGAGAGAGGC	0.701													7	12	---	---	---	---	PASS
ADCY9	115	broad.mit.edu	37	16	4163760	4163760	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:4163760G>T	uc002cvx.2	-	2	2223	c.1684C>A	c.(1684-1686)CAG>AAG	p.Q562K		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	562	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						CCTTTCAACTGGTCAGCAACC	0.468													5	85	---	---	---	---	PASS
GP2	2813	broad.mit.edu	37	16	20335151	20335151	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:20335151C>A	uc002dgv.2	-	3	605	c.522G>T	c.(520-522)CTG>CTT	p.L174L	GP2_uc002dgw.2_Silent_p.L174L|GP2_uc002dgx.2_Intron|GP2_uc002dgy.2_Intron	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	174						anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						TGCAGTATCTCAGATTACACC	0.572													8	8	---	---	---	---	PASS
COG7	91949	broad.mit.edu	37	16	23456434	23456434	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:23456434A>T	uc002dlo.2	-	3	558	c.370T>A	c.(370-372)TCT>ACT	p.S124T		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	124					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		TCCTGAAGAGATTCGGCAGCA	0.453													8	87	---	---	---	---	PASS
RBBP6	5930	broad.mit.edu	37	16	24583481	24583481	+	Silent	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:24583481C>G	uc002dmh.2	+	18	6134	c.5094C>G	c.(5092-5094)GTC>GTG	p.V1698V	RBBP6_uc002dmi.2_Silent_p.V1664V|RBBP6_uc010bxr.2_Silent_p.V858V|RBBP6_uc002dmk.2_Silent_p.V1531V	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1698					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		GCCCCAGCGTCAGCCCCAGCA	0.443													8	31	---	---	---	---	PASS
SLC5A11	115584	broad.mit.edu	37	16	24922792	24922792	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:24922792C>A	uc002dmu.2	+	16	2198	c.1966C>A	c.(1966-1968)CTG>ATG	p.L656M	SLC5A11_uc002dms.2_Missense_Mutation_p.L592M|SLC5A11_uc010vcd.1_Missense_Mutation_p.L621M|SLC5A11_uc002dmt.2_Missense_Mutation_p.L500M|SLC5A11_uc010vce.1_Missense_Mutation_p.L586M|SLC5A11_uc010bxt.2_Missense_Mutation_p.L592M|SLC5A11_uc002dmv.2_Missense_Mutation_p.L279M	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	656	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)		GAAGACCCTCCTGGACGTCAA	0.527													79	84	---	---	---	---	PASS
ATXN2L	11273	broad.mit.edu	37	16	28847341	28847341	+	Nonsense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:28847341C>T	uc002drc.2	+	22	3151	c.2983C>T	c.(2983-2985)CAG>TAG	p.Q995*	uc010vct.1_Intron|ATXN2L_uc002drb.2_Nonsense_Mutation_p.Q995*|ATXN2L_uc002dqy.2_Nonsense_Mutation_p.Q995*|ATXN2L_uc002dra.2_Nonsense_Mutation_p.Q995*|ATXN2L_uc002dqz.2_Nonsense_Mutation_p.Q995*|ATXN2L_uc010vdb.1_Nonsense_Mutation_p.Q1001*|ATXN2L_uc002dre.2_Nonsense_Mutation_p.Q995*|ATXN2L_uc002drf.2_Nonsense_Mutation_p.Q404*|ATXN2L_uc002drg.2_Nonsense_Mutation_p.Q278*	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	995						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						GCACCCACCCCAGAGTCATGG	0.672													6	28	---	---	---	---	PASS
ZNF646	9726	broad.mit.edu	37	16	31089893	31089893	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:31089893G>A	uc002eap.2	+	2	2537	c.2248G>A	c.(2248-2250)GGT>AGT	p.G750S		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	750					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CCATTTCCAGGGTGATAAAGA	0.532													15	79	---	---	---	---	PASS
ABCC12	94160	broad.mit.edu	37	16	48119595	48119595	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:48119595A>G	uc002efc.1	-	27	4083	c.3737T>C	c.(3736-3738)TTA>TCA	p.L1246S	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1246	ABC transporter 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TTCTGCCTGTAATTTTTCTGG	0.403													12	40	---	---	---	---	PASS
RBL2	5934	broad.mit.edu	37	16	53499487	53499487	+	Missense_Mutation	SNP	T	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:53499487T>G	uc002ehi.3	+	13	1954	c.1836T>G	c.(1834-1836)AAT>AAG	p.N612K	RBL2_uc010vgv.1_Missense_Mutation_p.N538K|RBL2_uc002ehj.2_Missense_Mutation_p.N322K|RBL2_uc010vgw.1_Missense_Mutation_p.N396K	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	612	Domain A.|Pocket; binds E1A.				cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						TTAGAGACAATGAAAACAGAG	0.338													12	34	---	---	---	---	PASS
RBL2	5934	broad.mit.edu	37	16	53499488	53499488	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:53499488G>T	uc002ehi.3	+	13	1955	c.1837G>T	c.(1837-1839)GAA>TAA	p.E613*	RBL2_uc010vgv.1_Nonsense_Mutation_p.E539*|RBL2_uc002ehj.2_Nonsense_Mutation_p.E323*|RBL2_uc010vgw.1_Nonsense_Mutation_p.E397*	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	613	Domain A.|Pocket; binds E1A.				cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						TAGAGACAATGAAAACAGAGT	0.338													12	34	---	---	---	---	PASS
PMFBP1	83449	broad.mit.edu	37	16	72157488	72157488	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:72157488C>G	uc002fcc.3	-	18	2837	c.2665G>C	c.(2665-2667)GAT>CAT	p.D889H	PMFBP1_uc002fcd.2_Missense_Mutation_p.D884H|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.D739H	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	889										ovary(2)	2		Ovarian(137;0.179)				ATAATCTGATCATTCCCTCGG	0.557													24	18	---	---	---	---	PASS
MLYCD	23417	broad.mit.edu	37	16	83941731	83941731	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:83941731G>T	uc002fgz.2	+	3	662	c.642G>T	c.(640-642)GAG>GAT	p.E214D		NM_012213	NP_036345	O95822	DCMC_HUMAN	malonyl-CoA decarboxylase precursor	214					acyl-CoA metabolic process|fatty acid biosynthetic process	mitochondrion|peroxisome	malonyl-CoA decarboxylase activity|methylmalonyl-CoA decarboxylase activity				0						TCCGCCCCAGGGCTGAGGCTG	0.468													21	13	---	---	---	---	PASS
TAF1C	9013	broad.mit.edu	37	16	84218511	84218511	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:84218511C>A	uc002fhn.2	-	2	312	c.84G>T	c.(82-84)ATG>ATT	p.M28I	TAF1C_uc002fhm.2_Intron|TAF1C_uc010vnx.1_Missense_Mutation_p.M28I|TAF1C_uc010vny.1_Intron|TAF1C_uc010vnz.1_Intron|TAF1C_uc002fho.2_Intron|TAF1C_uc010voa.1_Intron|TAF1C_uc002fhp.1_RNA|TAF1C_uc010vob.1_Missense_Mutation_p.M28I	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	28					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						GCCAGCTGCACATGAAAGAGA	0.627													8	11	---	---	---	---	PASS
GAS8	2622	broad.mit.edu	37	16	90102917	90102917	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr16:90102917G>T	uc002fqi.1	+	6	801	c.679G>T	c.(679-681)GAG>TAG	p.E227*	GAS8_uc010vps.1_Nonsense_Mutation_p.E202*|GAS8_uc002fqh.2_Nonsense_Mutation_p.E144*|GAS8_uc010vpt.1_3'UTR|GAS8_uc010vpu.1_Nonsense_Mutation_p.E144*|GAS8_uc010vpv.1_Nonsense_Mutation_p.E198*|GAS8_uc010cjc.1_Nonsense_Mutation_p.E144*|GAS8_uc010vpw.1_Nonsense_Mutation_p.E144*|GAS8_uc002fqj.1_Nonsense_Mutation_p.E35*	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	227	Microtubule-binding.				negative regulation of cell proliferation|sperm motility	cilium|Golgi apparatus|microtubule|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.029)		GCAGCGCCACGAGGAGGCCTT	0.567													4	23	---	---	---	---	PASS
SMG6	23293	broad.mit.edu	37	17	2075968	2075968	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:2075968T>A	uc002fub.1	-	13	3396	c.3341A>T	c.(3340-3342)GAG>GTG	p.E1114V	SMG6_uc010vqv.1_Missense_Mutation_p.E206V	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	1114					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						CGAGGTTTTCTCCACGTAGCA	0.547													30	5	---	---	---	---	PASS
OR1A2	26189	broad.mit.edu	37	17	3101463	3101463	+	Silent	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:3101463T>C	uc002fvd.1	+	1	651	c.651T>C	c.(649-651)TAT>TAC	p.Y217Y		NM_012352	NP_036484	Q9Y585	OR1A2_HUMAN	olfactory receptor, family 1, subfamily A,	217	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TTGTCTCCTATGTTCAGGTCT	0.433													103	32	---	---	---	---	PASS
OR1E2	8388	broad.mit.edu	37	17	3337053	3337053	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:3337053T>C	uc010vre.1	-	1	83	c.83A>G	c.(82-84)TAT>TGT	p.Y28C		NM_003554	NP_003545	P47887	OR1E2_HUMAN	olfactory receptor, family 1, subfamily E,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			large_intestine(1)	1						GAACAGGGCATAGCACAGGTT	0.522													40	12	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7577538	7577538	+	Missense_Mutation	SNP	C	G	G	rs11540652		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:7577538C>G	uc002gim.2	-	7	937	c.743G>C	c.(742-744)CGG>CCG	p.R248P	TP53_uc002gig.1_Missense_Mutation_p.R248P|TP53_uc002gih.2_Missense_Mutation_p.R248P|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R116P|TP53_uc010cng.1_Missense_Mutation_p.R116P|TP53_uc002gii.1_Missense_Mutation_p.R116P|TP53_uc010cnh.1_Missense_Mutation_p.R248P|TP53_uc010cni.1_Missense_Mutation_p.R248P|TP53_uc002gij.2_Missense_Mutation_p.R248P|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R155P|TP53_uc002gio.2_Missense_Mutation_p.R116P	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	248	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|NR -> KW (in sporadic cancers; somatic mutation).|R -> C (in a sporadic cancer; somatic mutation).|NR -> IP (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R248Q(523)|p.R248W(443)|p.R248L(63)|p.R248P(12)|p.R248G(11)|p.R248R(10)|p.0?(7)|p.R155Q(4)|p.N247_R248delNR(2)|p.N247_R248>KW(2)|p.M246_P250delMNRRP(2)|p.R248fs*97(2)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.N247_P250delNRRP(1)|p.R249fs*96(1)|p.R248C(1)|p.G245fs*14(1)|p.N247_R248>IP(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)		GATGGGCCTCCGGTTCATGCC	0.572	R248Q(KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HS683_CENTRAL_NERVOUS_SYSTEM)|R248Q(NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HCC1143_BREAST)|R248Q(BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SKUT1_SOFT_TISSUE)|R248Q(HSC4_UPPER_AERODIGESTIVE_TRACT)|R248Q(HEC1A_ENDOMETRIUM)|R248Q(SF295_CENTRAL_NERVOUS_SYSTEM)|R248Q(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIN87_STOMACH)|R248Q(P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(RT112_URINARY_TRACT)|R248Q(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PANC0203_PANCREAS)|R248Q(EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NIHOVCAR3_OVARY)|R248Q(CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SW1463_LARGE_INTESTINE)|R248Q(HCC70_BREAST)|R248Q(KYSE150_OESOPHAGUS)|R248Q(NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIH211_LUNG)|R248Q(KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PC14_LUNG)	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)			25	8	---	---	---	---	PASS
DNAH2	146754	broad.mit.edu	37	17	7710538	7710538	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:7710538G>T	uc002giu.1	+	61	9527	c.9513G>T	c.(9511-9513)AAG>AAT	p.K3171N	DNAH2_uc010cnm.1_Missense_Mutation_p.K109N	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3171	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TTCTGAAGAAGATTGGGGCCT	0.527													54	16	---	---	---	---	PASS
MYH1	4619	broad.mit.edu	37	17	10412856	10412856	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:10412856C>A	uc002gmo.2	-	15	1627	c.1533G>T	c.(1531-1533)TGG>TGT	p.W511C	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	511	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CAATGAACGTCCACTCAATGC	0.483													44	29	---	---	---	---	PASS
MYH1	4619	broad.mit.edu	37	17	10412857	10412857	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:10412857C>A	uc002gmo.2	-	15	1626	c.1532G>T	c.(1531-1533)TGG>TTG	p.W511L	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	511	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						AATGAACGTCCACTCAATGCC	0.488													45	27	---	---	---	---	PASS
RICH2	9912	broad.mit.edu	37	17	12860030	12860030	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:12860030A>G	uc002gnr.3	+	15	1636	c.1309A>G	c.(1309-1311)ATC>GTC	p.I437V	RICH2_uc010vvk.1_Missense_Mutation_p.I437V|RICH2_uc010vvl.1_Missense_Mutation_p.I437V|RICH2_uc002gns.3_Missense_Mutation_p.I237V|RICH2_uc010vvm.1_Missense_Mutation_p.I437V|RICH2_uc010vvn.1_RNA|RICH2_uc002gnt.1_Missense_Mutation_p.I160V	NM_014859	NP_055674	Q17R89	RHG44_HUMAN	Rho GTPase-activating protein RICH2	437	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						CATTGAACCTATCATCCAGCA	0.527													17	7	---	---	---	---	PASS
ZNF207	7756	broad.mit.edu	37	17	30696771	30696771	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:30696771G>T	uc002hhh.3	+	11	1578	c.1430G>T	c.(1429-1431)CGT>CTT	p.R477L	ZNF207_uc002hhj.3_Missense_Mutation_p.R493L|ZNF207_uc002hhi.3_Missense_Mutation_p.R462L|ZNF207_uc010csz.2_Missense_Mutation_p.R496L|ZNF207_uc002hhk.1_Intron|ZNF207_uc002hhl.1_RNA	NM_003457	NP_003448	O43670	ZN207_HUMAN	zinc finger protein 207 isoform a	477						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			CAAGGTGGCCGTTACTGATCT	0.507													14	24	---	---	---	---	PASS
FBXO47	494188	broad.mit.edu	37	17	37099956	37099956	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:37099956G>T	uc002hrc.2	-	8	1027	c.827C>A	c.(826-828)CCT>CAT	p.P276H		NM_001008777	NP_001008777	Q5MNV8	FBX47_HUMAN	F-box protein 47	276											0						TTCATCTGTAGGTTCTTCTAT	0.383													5	58	---	---	---	---	PASS
PLCD3	113026	broad.mit.edu	37	17	43195803	43195803	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:43195803C>A	uc002iib.2	-	6	1084	c.970G>T	c.(970-972)GAG>TAG	p.E324*		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	324					intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	GCAGCCCCCTCCGGCGACAAC	0.577													5	59	---	---	---	---	PASS
HOXB7	3217	broad.mit.edu	37	17	46688189	46688189	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:46688189G>A	uc002inv.2	-	1	195	c.92C>T	c.(91-93)TCT>TTT	p.S31F		NM_004502	NP_004493	P09629	HXB7_HUMAN	homeobox B7	31						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AAACGCACAAGAAGTTTGTTC	0.552													13	37	---	---	---	---	PASS
PRR11	55771	broad.mit.edu	37	17	57262807	57262807	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:57262807G>A	uc002ixf.1	+	4	365	c.286G>A	c.(286-288)GAA>AAA	p.E96K	PRR11_uc002ixg.1_RNA	NM_018304	NP_060774	Q96HE9	PRR11_HUMAN	proline rich 11	96										ovary(2)	2	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TCAGAGTTTAGAAGTATTGAA	0.323													21	41	---	---	---	---	PASS
CD300C	10871	broad.mit.edu	37	17	72539071	72539071	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:72539071G>T	uc002jky.1	-	3	817	c.456C>A	c.(454-456)CCC>CCA	p.P152P		NM_006678	NP_006669	Q08708	CLM6_HUMAN	CD300C antigen precursor	152	Pro-rich.|Extracellular (Potential).				cellular defense response	integral to plasma membrane	transmembrane receptor activity				0						GCAGCTTCGTGGGAGGACCTG	0.637													15	14	---	---	---	---	PASS
KIAA0195	9772	broad.mit.edu	37	17	73489806	73489806	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:73489806G>T	uc002jnz.3	+	18	2491	c.2216G>T	c.(2215-2217)CGA>CTA	p.R739L	KIAA0195_uc010wsa.1_Missense_Mutation_p.R749L|KIAA0195_uc010wsb.1_Missense_Mutation_p.R379L|KIAA0195_uc002job.3_5'Flank	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	739					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			TTCTACCAGCGAGCCTGCCTG	0.607													4	103	---	---	---	---	PASS
RNF213	57674	broad.mit.edu	37	17	78337588	78337588	+	Silent	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr17:78337588C>G	uc002jyh.1	+	16	6190	c.5967C>G	c.(5965-5967)GTC>GTG	p.V1989V	uc002jyi.1_Intron|RNF213_uc010dhw.1_Silent_p.V371V	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TCAGGGAAGTCAGGTGAGACC	0.607													3	9	---	---	---	---	PASS
KIAA0802	23255	broad.mit.edu	37	18	8783855	8783855	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:8783855G>T	uc002knr.2	+	6	887	c.745G>T	c.(745-747)GAG>TAG	p.E249*	KIAA0802_uc002knq.2_Nonsense_Mutation_p.E249*|KIAA0802_uc010dkw.1_Nonsense_Mutation_p.E87*	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	600	Potential.										0						GCAGGAGCGGGAGGGCCCGGG	0.647													6	31	---	---	---	---	PASS
MC5R	4161	broad.mit.edu	37	18	13826055	13826055	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:13826055C>T	uc010xaf.1	+	1	291	c.291C>T	c.(289-291)TAC>TAT	p.Y97Y		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	97	Helical; Name=2; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						TCACCATCTACCTACTCAACA	0.522													4	27	---	---	---	---	PASS
OSBPL1A	114876	broad.mit.edu	37	18	21758027	21758027	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:21758027C>T	uc002kve.2	-	21	2217	c.2043G>A	c.(2041-2043)GGG>GGA	p.G681G	OSBPL1A_uc002kvd.2_Silent_p.G168G|OSBPL1A_uc010xbc.1_Silent_p.G299G	NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	681					cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					CTACACTCTTCCCCCAGAATT	0.443													8	42	---	---	---	---	PASS
ASXL3	80816	broad.mit.edu	37	18	31324435	31324435	+	Silent	SNP	T	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:31324435T>C	uc010dmg.1	+	12	4678	c.4623T>C	c.(4621-4623)GCT>GCC	p.A1541A	ASXL3_uc002kxq.2_Silent_p.A1248A	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1541					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CTTTCATTGCTGCTTCGGCAG	0.507											OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	12	---	---	---	---	PASS
RPRD1A	55197	broad.mit.edu	37	18	33613794	33613794	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:33613794G>A	uc002kzf.1	-	2	164	c.158C>T	c.(157-159)CCA>CTA	p.P53L	RPRD1A_uc002kze.1_Missense_Mutation_p.P17L|RPRD1A_uc002kzg.2_Missense_Mutation_p.P53L|RPRD1A_uc010dmw.2_Missense_Mutation_p.P17L|RPRD1A_uc010dmx.2_Missense_Mutation_p.P53L	NM_018170	NP_060640	Q96P16	RPR1A_HUMAN	regulation of nuclear pre-mRNA domain containing	53	CID.									ovary(1)|breast(1)	2						CTTCCTGTTTGGTTTGGCTGA	0.333													8	27	---	---	---	---	PASS
KIAA1632	57724	broad.mit.edu	37	18	43446904	43446904	+	Silent	SNP	C	A	A	rs142224776	by1000genomes	TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:43446904C>A	uc002lbm.2	-	38	6580	c.6480G>T	c.(6478-6480)TCG>TCT	p.S2160S	KIAA1632_uc010xcq.1_Silent_p.S714S|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Silent_p.S1035S	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	2160					autophagy						0						CACTCTGGTACGACACAATAT	0.398													34	18	---	---	---	---	PASS
DSEL	92126	broad.mit.edu	37	18	65181344	65181344	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:65181344C>A	uc002lke.1	-	2	1756	c.532G>T	c.(532-534)GTT>TTT	p.V178F		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	168						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				CCAATTGGAACCTCATCTCCT	0.383													26	14	---	---	---	---	PASS
DSEL	92126	broad.mit.edu	37	18	65181345	65181345	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr18:65181345C>G	uc002lke.1	-	2	1755	c.531G>C	c.(529-531)GAG>GAC	p.E177D		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	167						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				CAATTGGAACCTCATCTCCTG	0.378													27	14	---	---	---	---	PASS
MADCAM1	8174	broad.mit.edu	37	19	498595	498595	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:498595C>T	uc002los.2	+	3	447	c.437C>T	c.(436-438)GCG>GTG	p.A146V	MADCAM1_uc002lot.2_Missense_Mutation_p.A146V|MADCAM1_uc010drq.2_Missense_Mutation_p.A51V	NM_130760	NP_570116	Q13477	MADCA_HUMAN	mucosal vascular addressin cell adhesion	146	Extracellular (Potential).|Ig-like 2.				cell adhesion|immune response|regulation of immune response|signal transduction	integral to membrane|membrane fraction|plasma membrane					0		all_cancers(10;4.25e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GACCCCAACGCGCTCTCCTTC	0.716													11	2	---	---	---	---	PASS
DOT1L	84444	broad.mit.edu	37	19	2217007	2217007	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:2217007G>C	uc002lvb.3	+	21	2498	c.2462G>C	c.(2461-2463)GGC>GCC	p.G821A	DOT1L_uc002lvc.1_Missense_Mutation_p.G115A|uc002lvd.1_5'Flank|DOT1L_uc002lve.1_Missense_Mutation_p.G115A	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	821						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCGTGCCTGGCAGCATGAAG	0.657													8	21	---	---	---	---	PASS
ZNF556	80032	broad.mit.edu	37	19	2877439	2877439	+	Silent	SNP	C	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:2877439C>G	uc002lwp.1	+	4	570	c.483C>G	c.(481-483)TCC>TCG	p.S161S	ZNF556_uc002lwq.2_Silent_p.S160S	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	161	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATTCCTCATCCCTGATAAGGC	0.433													33	47	---	---	---	---	PASS
ZNF556	80032	broad.mit.edu	37	19	2877512	2877512	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:2877512C>T	uc002lwp.1	+	4	643	c.556C>T	c.(556-558)CGC>TGC	p.R186C	ZNF556_uc002lwq.2_Missense_Mutation_p.R185C	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	186	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCCTTCAGTCGCCCTTCCTA	0.453													45	38	---	---	---	---	PASS
UBXN6	80700	broad.mit.edu	37	19	4447574	4447574	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:4447574C>T	uc002man.1	-	6	684	c.588G>A	c.(586-588)AAG>AAA	p.K196K	UBXN6_uc010dty.1_Silent_p.K100K|UBXN6_uc002mam.1_Silent_p.K143K	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	196	PUB.					microtubule organizing center|nucleus	protein binding				0						GCAGCTTGATCTTCCGGTACT	0.677													18	61	---	---	---	---	PASS
LRG1	116844	broad.mit.edu	37	19	4538248	4538248	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:4538248T>A	uc002mau.2	-	2	759	c.748A>T	c.(748-750)AGG>TGG	p.R250W	PLIN5_uc002mat.1_Intron	NM_052972	NP_443204	P02750	A2GL_HUMAN	leucine-rich alpha-2-glycoprotein 1 precursor	250	LRR 7.					extracellular region|membrane				ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTGCCACCCTGGCCAGCTTG	0.607													77	38	---	---	---	---	PASS
PNPLA6	10908	broad.mit.edu	37	19	7605533	7605533	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:7605533G>T	uc010xjq.1	+	8	954	c.759G>T	c.(757-759)GTG>GTT	p.V253V	PNPLA6_uc002mgq.1_Silent_p.V205V|PNPLA6_uc010xjp.1_Silent_p.V205V|PNPLA6_uc002mgr.1_Silent_p.V205V|PNPLA6_uc002mgs.2_Silent_p.V244V	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	244	cNMP 1.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						AGGAGTGTGTGGTGAAGGAAG	0.602													5	66	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9090237	9090237	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:9090237C>T	uc002mkp.2	-	1	1782	c.1578G>A	c.(1576-1578)CAG>CAA	p.Q526Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	526	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CACTAAATTGCTGAGCTGTGC	0.542													38	41	---	---	---	---	PASS
ZNF791	163049	broad.mit.edu	37	19	12739314	12739314	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:12739314G>T	uc002mua.2	+	4	1133	c.971G>T	c.(970-972)GGA>GTA	p.G324V	ZNF791_uc010xml.1_Missense_Mutation_p.G292V|ZNF791_uc010dyu.1_Missense_Mutation_p.G215V|ZNF791_uc010xmm.1_Missense_Mutation_p.G215V	NM_153358	NP_699189	Q3KP31	ZN791_HUMAN	zinc finger protein 791	324					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ATTCATACTGGAGAGAAGCCC	0.408													5	57	---	---	---	---	PASS
CPAMD8	27151	broad.mit.edu	37	19	17091325	17091325	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:17091325T>A	uc002nfb.2	-	14	1740	c.1708A>T	c.(1708-1710)ACA>TCA	p.T570S		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	523						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						GAAAGGTGTGTTAAACGAATC	0.587													9	25	---	---	---	---	PASS
FKBP8	23770	broad.mit.edu	37	19	18649073	18649073	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:18649073G>A	uc002njk.1	-	5	835	c.722C>T	c.(721-723)GCC>GTC	p.A241V	FKBP8_uc002nji.1_Missense_Mutation_p.A79V|FKBP8_uc010xqi.1_Missense_Mutation_p.A270V|FKBP8_uc002njj.1_Missense_Mutation_p.A242V|FKBP8_uc002njl.1_Missense_Mutation_p.A242V|FKBP8_uc002njm.1_Missense_Mutation_p.A241V|FKBP8_uc010ebr.1_Missense_Mutation_p.A80V|FKBP8_uc002njn.2_RNA	NM_012181	NP_036313	Q14318	FKBP8_HUMAN	FK506-binding protein 8	241	TPR 1.				apoptosis|interspecies interaction between organisms|intracellular signal transduction|protein folding	integral to endoplasmic reticulum membrane|mitochondrial membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding			ovary(1)	1						GTAGGAGTTGGCGGCCAGGAC	0.662													7	41	---	---	---	---	PASS
ZNF85	7639	broad.mit.edu	37	19	21131712	21131712	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:21131712G>T	uc002npg.3	+	4	519	c.392G>T	c.(391-393)TGT>TTT	p.C131F	ZNF85_uc010ecn.2_Missense_Mutation_p.C66F|ZNF85_uc010eco.2_Missense_Mutation_p.C79F|ZNF85_uc002npi.2_Missense_Mutation_p.C72F	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	131						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						AAAGGAGGTTGTAATGGACTT	0.328													4	71	---	---	---	---	PASS
ZNF714	148206	broad.mit.edu	37	19	21300186	21300186	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:21300186A>G	uc002npo.3	+	6	1079	c.719A>G	c.(718-720)CAT>CGT	p.H240R	ZNF714_uc002npl.2_Missense_Mutation_p.H85R|ZNF714_uc010ecp.1_Missense_Mutation_p.H191R|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	240	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCCTTCTACCATTCTTCACAC	0.413													26	16	---	---	---	---	PASS
ZNF599	148103	broad.mit.edu	37	19	35250747	35250747	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:35250747A>G	uc010edn.1	-	4	1347	c.959T>C	c.(958-960)TTT>TCT	p.F320S	ZNF599_uc010edm.1_Missense_Mutation_p.F283S	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	320	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			GCTGTAGTAAAAAGCTTTCCC	0.433													3	69	---	---	---	---	PASS
HKR1	284459	broad.mit.edu	37	19	37854631	37854631	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:37854631G>C	uc002ogb.2	+	6	2203	c.1934G>C	c.(1933-1935)AGT>ACT	p.S645T	HKR1_uc002ofx.2_Missense_Mutation_p.S361T|HKR1_uc002ofy.2_Missense_Mutation_p.S361T|HKR1_uc002oga.2_Missense_Mutation_p.S627T|HKR1_uc010xto.1_Missense_Mutation_p.S627T|HKR1_uc002ogc.2_Missense_Mutation_p.S626T|HKR1_uc010xtp.1_Missense_Mutation_p.S584T|HKR1_uc002ogd.2_Missense_Mutation_p.S584T	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	645	C2H2-type 13.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CGGGGCTTTAGTCGGAAGTCC	0.473													4	49	---	---	---	---	PASS
CEACAM21	90273	broad.mit.edu	37	19	42085944	42085944	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:42085944C>A	uc002ore.3	+	3	759	c.663C>A	c.(661-663)AGC>AGA	p.S221R	CEACAM21_uc002orc.1_RNA|CEACAM21_uc002ord.1_RNA|CEACAM21_uc002orf.2_RNA|CEACAM21_uc002org.3_Missense_Mutation_p.S221R	NM_001098506	NP_001091976	Q3KPI0	CEA21_HUMAN	carcinoembryonic antigen-related cell adhesion	221	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1						ACCCAGTCAGCTCCAACAGGA	0.547													6	8	---	---	---	---	PASS
PSG6	5675	broad.mit.edu	37	19	43529139	43529139	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:43529139A>T	uc002ovh.1	-	2	241	c.152T>A	c.(151-153)GTG>GAG	p.V51E	PSG11_uc002ouw.2_Missense_Mutation_p.V51E|PSG10_uc002ouv.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Missense_Mutation_p.V51E|PSG11_uc002ovm.1_Missense_Mutation_p.V45E|PSG11_uc002ovn.1_Missense_Mutation_p.V51E|PSG11_uc002ovo.1_Intron|PSG11_uc002ovp.1_Intron			Q00889	PSG6_HUMAN	SubName: Full=Putative uncharacterized protein PSG6;	45	Ig-like V-type.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				CCCCTCGGACACTTTGGGTGG	0.468													80	117	---	---	---	---	PASS
ZNF227	7770	broad.mit.edu	37	19	44740694	44740694	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:44740694G>T	uc002oyu.2	+	6	2316	c.2111G>T	c.(2110-2112)CGC>CTC	p.R704L	ZNF227_uc010xwu.1_Missense_Mutation_p.R653L|ZNF227_uc002oyv.2_Missense_Mutation_p.R704L|ZNF227_uc010xwv.1_Missense_Mutation_p.R653L|ZNF227_uc010xww.1_Missense_Mutation_p.R625L|ZNF227_uc002oyw.2_Missense_Mutation_p.R676L|ZNF227_uc010ejh.2_Missense_Mutation_p.R697L|ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_3'UTR	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	704	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				TTGAATCTTCGCCATCATCAG	0.483													4	82	---	---	---	---	PASS
CEACAM16	388551	broad.mit.edu	37	19	45211185	45211185	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:45211185C>A	uc010xxd.1	+	6	1199	c.993C>A	c.(991-993)GGC>GGA	p.G331G	CEACAM16_uc002ozq.2_Silent_p.G390G	NM_001039213	NP_001034302	A7LI12	A7LI12_HUMAN	carcinoembryonic antigen-related cell adhesion	331										ovary(1)	1	Lung NSC(12;0.000698)|all_lung(12;0.002)	Prostate(69;0.0376)|Ovarian(192;0.231)				CAACGGAGGGCCAGGACGTAA	0.662													3	11	---	---	---	---	PASS
FOSB	2354	broad.mit.edu	37	19	45975850	45975850	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:45975850G>T	uc002pbx.3	+	4	1189	c.597G>T	c.(595-597)TCG>TCT	p.S199S	ERCC1_uc002pbu.1_Intron|FOSB_uc010eke.2_Silent_p.S124S|FOSB_uc002pby.3_Silent_p.S163S|FOSB_uc010eka.1_Silent_p.S160S|FOSB_uc010ekb.1_Silent_p.S199S|FOSB_uc010ekc.1_Silent_p.S56S|FOSB_uc010ekf.2_Silent_p.S160S|FOSB_uc010ekd.1_Silent_p.S163S|FOSB_uc010ekg.2_Silent_p.S56S|FOSB_uc002pca.3_Silent_p.S150S	NM_006732	NP_006723	P53539	FOSB_HUMAN	FBJ murine osteosarcoma viral oncogene homolog B	199	Leucine-zipper.				behavior|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(2)|lung(1)	3		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00814)|Epithelial(262;0.18)|GBM - Glioblastoma multiforme(486;0.242)		AGCTGGAGTCGGAGATCGCCG	0.577													13	16	---	---	---	---	PASS
LIG1	3978	broad.mit.edu	37	19	48624466	48624466	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:48624466G>T	uc002pia.1	-	24	2466	c.2346C>A	c.(2344-2346)TCC>TCA	p.S782S	LIG1_uc010xze.1_Silent_p.S475S|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Silent_p.S714S|LIG1_uc010xzg.1_Silent_p.S751S	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	782					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	CCTCGTCGTAGGAGGCCAGCA	0.662								NER					6	67	---	---	---	---	PASS
CCDC155	147872	broad.mit.edu	37	19	49901368	49901368	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:49901368G>T	uc002pnm.1	+	7	771	c.597G>T	c.(595-597)GAG>GAT	p.E199D	CCDC155_uc002pnl.1_Missense_Mutation_p.E199D|CCDC155_uc010emx.1_Missense_Mutation_p.E172D	NM_144688	NP_653289	Q8N6L0	CC155_HUMAN	coiled-coil domain containing 155	199	Potential.					integral to membrane	calcium ion binding			ovary(1)|central_nervous_system(1)	2						GCCTTGGGGAGGAGATCTTGG	0.647													4	22	---	---	---	---	PASS
PRR12	57479	broad.mit.edu	37	19	50099409	50099409	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:50099409G>T	uc002poo.3	+	4	1817	c.1817G>T	c.(1816-1818)GGC>GTC	p.G606V		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		CCGGGAGCTGGCAGCTATGCA	0.682													12	14	---	---	---	---	PASS
SHANK1	50944	broad.mit.edu	37	19	51192460	51192460	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:51192460C>A	uc002psx.1	-	15	2060	c.2041G>T	c.(2041-2043)GCC>TCC	p.A681S	SHANK1_uc002psw.1_Missense_Mutation_p.A65S	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	681	PDZ.				cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		TCACCCTTGGCCCCCCGGAGC	0.607													5	70	---	---	---	---	PASS
ZNF701	55762	broad.mit.edu	37	19	53085781	53085781	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:53085781G>A	uc002pzs.1	+	4	596	c.469G>A	c.(469-471)GAA>AAA	p.E157K	ZNF701_uc010ydn.1_Missense_Mutation_p.E223K	NM_018260	NP_060730	Q9NV72	ZN701_HUMAN	zinc finger protein 701	157					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0105)|GBM - Glioblastoma multiforme(134;0.0402)		ATTTCACCCCGAAGGGAAAAT	0.413													32	91	---	---	---	---	PASS
MBOAT7	79143	broad.mit.edu	37	19	54687471	54687471	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:54687471C>T	uc002qdq.2	-	6	692	c.426G>A	c.(424-426)CTG>CTA	p.L142L	MBOAT7_uc010erg.2_5'UTR|MBOAT7_uc010yem.1_Silent_p.L124L|MBOAT7_uc002qdr.2_Silent_p.L142L|MBOAT7_uc002qds.2_Silent_p.L69L|MBOAT7_uc010yen.1_Silent_p.L69L|MBOAT7_uc002qdt.3_Silent_p.L142L	NM_024298	NP_077274	Q96N66	MBOA7_HUMAN	membrane bound O-acyltransferase domain	142					phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CGTCGGGCAGCAGCCCCAGGG	0.627													17	27	---	---	---	---	PASS
PTPRH	5794	broad.mit.edu	37	19	55711656	55711656	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:55711656C>A	uc002qjq.2	-	7	1441	c.1368G>T	c.(1366-1368)TGG>TGT	p.W456C	PTPRH_uc010esv.2_Missense_Mutation_p.W278C|PTPRH_uc002qjs.2_Missense_Mutation_p.W463C	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	456	Extracellular (Potential).|Fibronectin type-III 5.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		TTTTTTCTGCCCATACAGAGA	0.517													18	16	---	---	---	---	PASS
ZNF835	90485	broad.mit.edu	37	19	57175601	57175601	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:57175601G>A	uc010ygo.1	-	2	1032	c.1032C>T	c.(1030-1032)GCC>GCT	p.A344A	ZNF835_uc010ygn.1_Silent_p.A322A	NM_001005850	NP_001005850			zinc finger protein 835									p.G334fs*26(1)		pancreas(3)|skin(1)	4						GCCGGTGCTCGGCCAGAGAGG	0.701													11	18	---	---	---	---	PASS
ZNF586	54807	broad.mit.edu	37	19	58290273	58290273	+	Silent	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:58290273C>T	uc002qqd.2	+	3	504	c.318C>T	c.(316-318)CCC>CCT	p.P106P	ZNF587_uc002qqb.2_Intron|ZNF586_uc002qqe.2_Missense_Mutation_p.P64L|ZNF586_uc010euh.2_Silent_p.P63P|ZNF586_uc002qqf.1_Intron	NM_017652	NP_060122	Q9NXT0	ZN586_HUMAN	zinc finger protein 586	106	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TCACTGAACCCAGAAGAGATC	0.413													14	70	---	---	---	---	PASS
ZNF446	55663	broad.mit.edu	37	19	58991863	58991863	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:58991863C>T	uc002qsz.2	+	7	1240	c.1123C>T	c.(1123-1125)CCA>TCA	p.P375S	ZNF446_uc002qta.2_3'UTR|ZNF446_uc010eur.2_3'UTR|SLC27A5_uc002qtb.2_RNA	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	375					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		AGAGAAGCCACCACAAGGGGA	0.647													7	7	---	---	---	---	PASS
CPXM1	56265	broad.mit.edu	37	20	2778860	2778860	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:2778860C>A	uc002wgu.2	-	4	592	c.528G>T	c.(526-528)GTG>GTT	p.V176V	CPXM1_uc010gas.2_Silent_p.V176V	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	176	F5/8 type C.				cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						GCCCAGCGTCCACCTGAAACC	0.592													5	46	---	---	---	---	PASS
PLCB1	23236	broad.mit.edu	37	20	8769342	8769342	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:8769342A>T	uc002wnb.2	+	29	3254	c.3251A>T	c.(3250-3252)AAA>ATA	p.K1084I	PLCB1_uc002wna.2_Missense_Mutation_p.K1084I	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	1084					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						ACAGAAGCTAAATCCAAAGAC	0.363													10	28	---	---	---	---	PASS
C20orf26	26074	broad.mit.edu	37	20	20079402	20079402	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:20079402C>A	uc002wru.2	+	8	879	c.803C>A	c.(802-804)CCA>CAA	p.P268Q	C20orf26_uc010gcw.1_Missense_Mutation_p.P222Q|C20orf26_uc010zse.1_Missense_Mutation_p.P268Q|C20orf26_uc010zsf.1_Missense_Mutation_p.P268Q	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	268										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		CTCTGTTTCCCACATCCTGAT	0.488													16	41	---	---	---	---	PASS
PAX1	5075	broad.mit.edu	37	20	21687473	21687473	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:21687473G>T	uc002wsj.2	+	2	738	c.684G>T	c.(682-684)CTG>CTT	p.L228L	PAX1_uc010zsl.1_Silent_p.L228L|PAX1_uc010zsm.1_Silent_p.L204L	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	228					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						TCGGCAGCCTGGCGCAGCCCG	0.642													26	10	---	---	---	---	PASS
MAPRE1	22919	broad.mit.edu	37	20	31421598	31421598	+	Missense_Mutation	SNP	A	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:31421598A>C	uc002wyh.2	+	3	336	c.197A>C	c.(196-198)AAG>ACG	p.K66T		NM_012325	NP_036457	Q15691	MARE1_HUMAN	microtubule-associated protein, RP/EB family,	66	CH.				cell division|cell proliferation|G2/M transition of mitotic cell cycle|mitotic prometaphase|negative regulation of microtubule polymerization|protein localization to microtubule	centrosome|cortical microtubule cytoskeleton|cytosol	microtubule plus-end binding|protein C-terminus binding				0						TTCCAAGCTAAGCTAGAACAC	0.398													51	62	---	---	---	---	PASS
SLC12A5	57468	broad.mit.edu	37	20	44663663	44663663	+	Silent	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:44663663G>A	uc010zxl.1	+	2	274	c.198G>A	c.(196-198)AAG>AAA	p.K66K	SLC12A5_uc002xra.2_Silent_p.K43K|SLC12A5_uc010zxm.1_RNA|SLC12A5_uc002xrb.2_Silent_p.K43K	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	66	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	ATGATGGCAAGAACATGGCCT	0.547													43	74	---	---	---	---	PASS
PTPN1	5770	broad.mit.edu	37	20	49177930	49177930	+	Missense_Mutation	SNP	T	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr20:49177930T>G	uc002xvl.2	+	2	268	c.94T>G	c.(94-96)TGT>GGT	p.C32G	PTPN1_uc010zys.1_Intron	NM_002827	NP_002818	P18031	PTN1_HUMAN	protein tyrosine phosphatase, non-receptor type	32	Tyrosine-protein phosphatase.				blood coagulation|interferon-gamma-mediated signaling pathway|negative regulation of insulin receptor signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol|endoplasmic reticulum membrane	protein tyrosine phosphatase activity|zinc ion binding				0		Lung NSC(126;0.163)			Clodronate(DB00720)|Tiludronate(DB01133)	TGACTTCCCATGTAGAGTGGC	0.453													6	57	---	---	---	---	PASS
KRTAP13-1	140258	broad.mit.edu	37	21	31768868	31768868	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr21:31768868G>A	uc002yoa.2	+	1	477	c.464G>A	c.(463-465)AGG>AAG	p.R155K		NM_181599	NP_853630	Q8IUC0	KR131_HUMAN	keratin associated protein 13-1	155						intermediate filament				ovary(1)	1						TTGGCTTCTAGGAGCTGCCAG	0.502													16	15	---	---	---	---	PASS
CSF2RB	1439	broad.mit.edu	37	22	37333986	37333986	+	Silent	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr22:37333986C>A	uc003aqa.3	+	14	2353	c.2136C>A	c.(2134-2136)GTC>GTA	p.V712V	CSF2RB_uc003aqc.3_Silent_p.V718V	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	712	Cytoplasmic (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	CTGGTTATGTCTCCTCTGCAG	0.597													17	19	---	---	---	---	PASS
JOSD1	9929	broad.mit.edu	37	22	39085044	39085044	+	Silent	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr22:39085044G>C	uc003awf.2	-	3	872	c.405C>G	c.(403-405)CTC>CTG	p.L135L		NM_014876	NP_055691	Q15040	JOS1_HUMAN	Josephin domain containing 1	135	Josephin.						peptidase activity				0	Melanoma(58;0.04)					GCTGCCTTTTGAGGGGCAGTT	0.572													27	33	---	---	---	---	PASS
PARVB	29780	broad.mit.edu	37	22	44532354	44532354	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr22:44532354G>T	uc003ben.2	+	7	700	c.648G>T	c.(646-648)CTG>CTT	p.L216L	PARVB_uc003bem.2_Silent_p.L249L|PARVB_uc010gzn.2_Silent_p.L164L|PARVB_uc003beo.2_Silent_p.L179L	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b	216					cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)				GGGAAGGCCTGCTGCATTCCA	0.562													17	20	---	---	---	---	PASS
FAM48B1	100130302	broad.mit.edu	37	X	24382817	24382817	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:24382817A>G	uc011mjx.1	+	1	1940	c.1940A>G	c.(1939-1941)GAC>GGC	p.D647G		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						AGTGGCAGTGACCTTCAGTCC	0.612													10	5	---	---	---	---	PASS
POLA1	5422	broad.mit.edu	37	X	24753605	24753605	+	Silent	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:24753605G>T	uc004dbl.2	+	18	1928	c.1905G>T	c.(1903-1905)GTG>GTT	p.V635V		NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	635					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	ATATCATTGTGGTGAGTAGAT	0.368													5	43	---	---	---	---	PASS
MAGEB6	158809	broad.mit.edu	37	X	26213027	26213027	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:26213027A>G	uc004dbr.2	+	2	1213	c.1064A>G	c.(1063-1065)TAT>TGT	p.Y355C	MAGEB6_uc010ngc.1_Missense_Mutation_p.Y135C	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	355	MAGE.									ovary(3)	3						CCTCCATGCTATGAGTTCCTG	0.498													28	5	---	---	---	---	PASS
BCOR	54880	broad.mit.edu	37	X	39934379	39934379	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:39934379G>T	uc004den.3	-	4	512	c.220C>A	c.(220-222)CGC>AGC	p.R74S	BCOR_uc004dep.3_Missense_Mutation_p.R74S|BCOR_uc004deo.3_Missense_Mutation_p.R74S|BCOR_uc004dem.3_Missense_Mutation_p.R74S|BCOR_uc004deq.3_Missense_Mutation_p.R74S	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	74					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						AGGCCAGTGCGGTCCATGCTC	0.582													4	9	---	---	---	---	PASS
UBA1	7317	broad.mit.edu	37	X	47070573	47070573	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:47070573G>C	uc004dhj.3	+	20	2564	c.2413G>C	c.(2413-2415)GTC>CTC	p.V805L	UBA1_uc004dhk.3_Missense_Mutation_p.V805L|UBA1_uc004dhm.2_Missense_Mutation_p.V253L	NM_153280	NP_695012	P22314	UBA1_HUMAN	ubiquitin-activating enzyme E1	805					cell death|protein modification process		ATP binding|ligase activity|protein binding|small protein activating enzyme activity			ovary(1)	1						CAAGTCTGGCGTCAAGATCCA	0.607													4	39	---	---	---	---	PASS
MAGED1	9500	broad.mit.edu	37	X	51638459	51638459	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:51638459C>A	uc004dpm.2	+	3	451	c.356C>A	c.(355-357)CCA>CAA	p.P119Q	MAGED1_uc004dpn.2_Missense_Mutation_p.P175Q|MAGED1_uc004dpo.2_Missense_Mutation_p.P119Q|MAGED1_uc011mnx.1_Intron	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	119				P -> S (in Ref. 1; AAG09704).	apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					AATGCTACCCCAAAGGGTCCA	0.502										Multiple Myeloma(10;0.10)			3	6	---	---	---	---	PASS
NKRF	55922	broad.mit.edu	37	X	118724197	118724197	+	Silent	SNP	A	G	G			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:118724197A>G	uc004erq.2	-	2	1844	c.1191T>C	c.(1189-1191)AGT>AGC	p.S397S	NKRF_uc004err.2_Silent_p.S397S	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	397					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						CTGCATGTTTACTTGTTTTCT	0.413													71	10	---	---	---	---	PASS
CXorf66	347487	broad.mit.edu	37	X	139038229	139038229	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:139038229C>A	uc004fbb.2	-	3	934	c.912G>T	c.(910-912)AAG>AAT	p.K304N		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	304	Cytoplasmic (Potential).					integral to membrane					0						TGGAAGAGGACTTGACTTTGC	0.378													15	35	---	---	---	---	PASS
UBE2NL	389898	broad.mit.edu	37	X	142967551	142967551	+	Missense_Mutation	SNP	A	C	C			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:142967551A>C	uc004fca.2	+	1	379	c.349A>C	c.(349-351)AAT>CAT	p.N117H		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	117							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					AAATGCTCCCAATCCAGATGA	0.453													30	39	---	---	---	---	PASS
GDI1	2664	broad.mit.edu	37	X	153667172	153667172	+	Nonsense_Mutation	SNP	G	A	A			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:153667172G>A	uc004fli.3	+	3	557	c.215G>A	c.(214-216)TGG>TAG	p.W72*	GDI1_uc011mzo.1_Nonsense_Mutation_p.W72*	NM_001493	NP_001484	P31150	GDIA_HUMAN	GDP dissociation inhibitor 1	72					protein transport|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|midbody	GTPase activator activity|protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGCCGAGACTGGAATGTTGAC	0.572													86	11	---	---	---	---	PASS
OR2G2	81470	broad.mit.edu	37	1	247751925	247751926	+	Frame_Shift_Ins	INS	-	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr1:247751925_247751926insT	uc010pyy.1	+	1	264_265	c.264_265insT	c.(262-267)CTGTGGfs	p.L88fs		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	88_89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TGGTAAACCTGTGGGAACCCAT	0.515													50	50	---	---	---	---	
MUC13	56667	broad.mit.edu	37	3	124641091	124641092	+	Frame_Shift_Del	DEL	TC	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr3:124641091_124641092delTC	uc003ehq.1	-	4	717_718	c.693_694delGA	c.(691-696)GAGAAAfs	p.E231fs		NM_033049	NP_149038	Q9H3R2	MUC13_HUMAN	mucin 13, epithelial transmembrane	231_232	SEA.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane					0						ATGGAATGTTTCTCTTCTGGGT	0.361													22	55	---	---	---	---	
CWC27	10283	broad.mit.edu	37	5	64082402	64082402	+	Frame_Shift_Del	DEL	A	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr5:64082402delA	uc003jtn.1	+	6	766	c.547delA	c.(547-549)AAAfs	p.K183fs	CWC27_uc003jtl.2_Frame_Shift_Del_p.K183fs|CWC27_uc003jtm.2_Frame_Shift_Del_p.K183fs|CWC27_uc010iwt.1_Frame_Shift_Del_p.K183fs	NM_005869	NP_005860	Q6UX04	CWC27_HUMAN	serologically defined colon cancer antigen 10	183					protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity				0						TAAAAGGCTGAAAAAAGAGAA	0.308													10	26	---	---	---	---	
ZSCAN23	222696	broad.mit.edu	37	6	28402480	28402480	+	Frame_Shift_Del	DEL	C	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:28402480delC	uc003nli.3	-	4	1113	c.932delG	c.(931-933)GGCfs	p.G311fs	ZSCAN23_uc003nlh.2_RNA|ZSCAN23_uc010jrf.1_RNA|ZSCAN23_uc011dli.1_3'UTR	NM_001012455	NP_001012458	Q3MJ62	ZSC23_HUMAN	zinc finger protein 390	311	C2H2-type 3.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GAAGGCTTTGCCACAAACACT	0.532													7	10	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	44042334	44042335	+	RNA	DEL	AC	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr6:44042334_44042335delAC	uc003owm.1	-	1		c.55_56delGT								Homo sapiens cDNA: FLJ21083 fis, clone CAS03150.																		CAGTTTCATTACACACACAGAC	0.574											OREG0017461	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	2	---	---	---	---	
AUTS2	26053	broad.mit.edu	37	7	70255577	70255579	+	In_Frame_Del	DEL	CCA	-	-	rs35604576		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr7:70255577_70255579delCCA	uc003tvw.3	+	19	4118_4120	c.3375_3377delCCA	c.(3373-3378)AGCCAC>AGC	p.H1133del	AUTS2_uc003tvx.3_In_Frame_Del_p.H1109del|AUTS2_uc011keg.1_In_Frame_Del_p.H585del	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	1133	His-rich.									ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		ACGACTACAGccaccaccaccac	0.591													4	2	---	---	---	---	
COL22A1	169044	broad.mit.edu	37	8	139890382	139890382	+	Frame_Shift_Del	DEL	A	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:139890382delA	uc003yvd.2	-	3	716	c.269delT	c.(268-270)TTCfs	p.F90fs		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	90	VWFA.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			TCCCAACTCGAAGGCCGTGGT	0.701										HNSCC(7;0.00092)			4	2	---	---	---	---	
ARC	23237	broad.mit.edu	37	8	143694528	143694528	+	Frame_Shift_Del	DEL	G	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr8:143694528delG	uc003ywn.1	-	1	1306	c.1105delC	c.(1105-1107)CACfs	p.H369fs		NM_015193	NP_056008	Q7LC44	ARC_HUMAN	activity-regulated cytoskeleton-associated	369					endocytosis	acrosomal vesicle|cell junction|dendritic spine|endosome|postsynaptic density|postsynaptic membrane				breast(1)	1	all_cancers(97;3.55e-12)|all_epithelial(106;1.03e-08)|Lung NSC(106;0.000353)|all_lung(105;0.00092)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.0279)				ACCGGGAGGTGGGGGCCGGCC	0.711													2	4	---	---	---	---	
SNAPC4	6621	broad.mit.edu	37	9	139277995	139277997	+	In_Frame_Del	DEL	GCT	-	-	rs35266724		TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr9:139277995_139277997delGCT	uc004chh.2	-	15	1633_1635	c.1624_1626delAGC	c.(1624-1626)AGCdel	p.S542del		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	542					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CGTCCTCCTCgctgctgctgctg	0.473													7	6	---	---	---	---	
SLC35C1	55343	broad.mit.edu	37	11	45832809	45832810	+	Frame_Shift_Ins	INS	-	T	T			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:45832809_45832810insT	uc001nbp.2	+	2	1730_1731	c.1018_1019insT	c.(1018-1020)GTCfs	p.V340fs	SLC35C1_uc001nbo.2_Frame_Shift_Ins_p.V327fs|SLC35C1_uc010rgm.1_Frame_Shift_Ins_p.V327fs	NM_018389	NP_060859	Q96A29	FUCT1_HUMAN	GDP-fucose transporter 1 isoform a	340						Golgi membrane|integral to membrane	GDP-fucose transmembrane transporter activity				0				GBM - Glioblastoma multiforme(35;0.227)		CTACACCTGGGTCAGGGGCTGG	0.634													2	11	---	---	---	---	
GUCY1A2	2977	broad.mit.edu	37	11	106849403	106849403	+	Frame_Shift_Del	DEL	G	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr11:106849403delG	uc001pjg.1	-	3	819	c.429delC	c.(427-429)TCCfs	p.S143fs	GUCY1A2_uc010rvo.1_Frame_Shift_Del_p.S143fs|GUCY1A2_uc009yxn.1_Frame_Shift_Del_p.S143fs	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	143					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CTTCTTTGTTGGAGTGGTCTG	0.323													10	21	---	---	---	---	
H3F3C	440093	broad.mit.edu	37	12	31945016	31945016	+	Frame_Shift_Del	DEL	T	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr12:31945016delT	uc001rkr.2	-	1	160	c.85delA	c.(85-87)AGCfs	p.S29fs		NM_001013699	NP_001013721	Q6NXT2	H3C_HUMAN	histone H3-like	29					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GAGGGGGTGCTTTTCCTGGCA	0.587										HNSCC(67;0.2)			32	17	---	---	---	---	
PCDH17	27253	broad.mit.edu	37	13	58208948	58208948	+	Frame_Shift_Del	DEL	G	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr13:58208948delG	uc001vhq.1	+	1	3160	c.2268delG	c.(2266-2268)AAGfs	p.K756fs	PCDH17_uc010aec.1_Frame_Shift_Del_p.K756fs	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	756	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)		GTGGGGGCAAGGGCAAGAAGA	0.557													27	22	---	---	---	---	
CYP1A1	1543	broad.mit.edu	37	15	75013955	75013974	+	Frame_Shift_Del	DEL	ATGTTAATGATCTTCTCATC	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr15:75013955_75013974delATGTTAATGATCTTCTCATC	uc002ayp.3	-	3	1032_1051	c.910_929delGATGAGAAGATCATTAACAT	c.(910-930)GATGAGAAGATCATTAACATCfs	p.D304fs	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Frame_Shift_Del_p.D40fs|CYP1A1_uc010bjx.2_Frame_Shift_Del_p.D40fs|CYP1A1_uc002ayq.3_Frame_Shift_Del_p.D304fs|CYP1A1_uc010bjy.2_Frame_Shift_Del_p.D304fs|CYP1A1_uc010bjz.1_Frame_Shift_Del_p.D40fs	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	304_310					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	GTCCAAGACGATGTTAATGATCTTCTCATCTGACAGCTGG	0.514									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				26	12	---	---	---	---	
IRGQ	126298	broad.mit.edu	37	19	44096824	44096826	+	In_Frame_Del	DEL	TCT	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr19:44096824_44096826delTCT	uc002oww.2	-	2	1342_1344	c.1224_1226delAGA	c.(1222-1227)TCAGAG>TCG	p.E409del	IRGQ_uc010eiv.2_In_Frame_Del_p.E409del	NM_001007561	NP_001007562	Q8WZA9	IRGQ_HUMAN	immunity-related GTPase family, Q	409							protein binding			ovary(1)|pancreas(1)	2		Prostate(69;0.0199)				AGCGGCCCGCTCTGAGTCGCCAC	0.660													65	32	---	---	---	---	
CARD10	29775	broad.mit.edu	37	22	37890147	37890147	+	Frame_Shift_Del	DEL	C	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chr22:37890147delC	uc003asx.1	-	16	2425	c.2422delG	c.(2422-2424)GTGfs	p.V808fs	CARD10_uc003ast.1_RNA|CARD10_uc003asu.1_5'Flank|CARD10_uc003asv.1_5'UTR|CARD10_uc011ank.1_Frame_Shift_Del_p.V126fs|CARD10_uc003asw.1_Frame_Shift_Del_p.V522fs|CARD10_uc003asy.1_Frame_Shift_Del_p.V808fs	NM_014550	NP_055365	Q9BWT7	CAR10_HUMAN	caspase recruitment domain protein 10	808					activation of NF-kappaB-inducing kinase activity|protein complex assembly|regulation of apoptosis	CBM complex	receptor signaling complex scaffold activity			upper_aerodigestive_tract(1)|lung(1)|breast(1)|ovary(1)|prostate(1)|kidney(1)	6	Melanoma(58;0.0574)					GGCGCCCCCACGGGCTTGGGC	0.677													4	3	---	---	---	---	
CYBB	1536	broad.mit.edu	37	X	37663222	37663222	+	Frame_Shift_Del	DEL	A	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:37663222delA	uc004ddr.2	+	9	1051	c.990delA	c.(988-990)CCAfs	p.P330fs	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Frame_Shift_Del_p.P298fs|CYBB_uc011mkg.1_Frame_Shift_Del_p.P63fs	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	330	Cytoplasmic (Potential).|FAD-binding FR-type.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						TCAAGTGCCCAAAGGTGTCCA	0.478													13	30	---	---	---	---	
NXF3	56000	broad.mit.edu	37	X	102334777	102334778	+	Frame_Shift_Del	DEL	AG	-	-			TCGA-46-3768-01A-01D-0983-08	TCGA-46-3768-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	30666313-cc29-4fce-8308-b04fb932083c	b7921120-9dcf-49f4-b1a3-dd33a3fddc47	g.chrX:102334777_102334778delAG	uc004eju.2	-	13	1144_1145	c.1073_1074delCT	c.(1072-1074)TCTfs	p.S358fs	NXF3_uc010noi.1_Frame_Shift_Del_p.S208fs	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	358	NTF2.					cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						GTCGATCTCCAGAGTCATAGAT	0.520													19	46	---	---	---	---