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	Genome_Change	Annotation_Transcript	Transcript_Strand	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	i_ACHILLES_Top_Genes	i_CCLE_ONCOMAP_overlapping_mutations	i_CCLE_ONCOMAP_total_mutations_in_gene	i_CCLE_SEQ_overlapping_mutations	i_CCLE_SEQ_total_mutations_in_gene	MUTSIG_Significant_Genes	OREGANNO_ID	OREGANNO_Values	i_tumor_f	i_init_t_lod	i_t_lod_fstar	i_t_alt_count	i_t_ref_count	i_judgement	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	dataset	Oncotatorv0393GAF20hg19Feb2011dbSNPbuild132UniProtRelease2011_6	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	newbase	context_orig	context65	gene_name	categ	categ_ignoring_null_categ
TDRD1	56165	broad.mit.edu	37	10	115985847	115985847	+	Nonsense_Mutation	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:115985847C>G	uc001lbg.1	+	c.3047C>G	c.(3046-3048)TCA>TGA	p.S1016*	TDRD1_uc001lbf.2_Nonsense_Mutation_p.S893*|TDRD1_uc001lbh.1_Nonsense_Mutation_p.S1003*|TDRD1_uc001lbi.1_Nonsense_Mutation_p.S1007*|TDRD1_uc010qsc.1_Nonsense_Mutation_p.S620*|TDRD1_uc001lbj.2_Nonsense_Mutation_p.S725*	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	1016	Tudor 4.				DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)										0.144	34.768188	50.017633	18	107	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	115985847	115985847	16256	10	C	G	G	G	377	29	TDRD1	5	3
EMX2	2018	broad.mit.edu	37	10	119303022	119303022	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:119303022G>A	uc001ldh.3	+	c.244G>A	c.(244-246)GCC>ACC	p.A82T	EMX2OS_uc001ldf.2_5'Flank|EMX2OS_uc001ldg.2_Intron|EMX2_uc001ldi.3_Missense_Mutation_p.A82T	NM_004098	NP_004089	Q04743	EMX2_HUMAN	empty spiracles homeobox 2 isoform 1	82					regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity				0		Colorectal(252;0.109)|Lung NSC(174;0.179)|all_lung(145;0.22)		all cancers(201;0.0133)										0.388889	18.928589	19.12038	7	11	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	119303022	119303022	5301	10	G	A	A	A	494	38	EMX2	1	1
MARCH8	220972	broad.mit.edu	37	10	45953916	45953916	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:45953916T>C	uc001jch.2	-	c.1493A>G	c.(1492-1494)TAT>TGT	p.Y498C	MARCH8_uc001jci.1_Missense_Mutation_p.Y216C|MARCH8_uc001jcj.1_Missense_Mutation_p.Y216C|MARCH8_uc001jck.1_Missense_Mutation_p.Y216C|MARCH8_uc001jcg.1_Missense_Mutation_p.Y85C	NM_001002266	NP_659458	Q5T0T0	MARH8_HUMAN	cellular modulator of immune recognition isoform	216	Helical; (Potential).					cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding				0						NSCLC(102;658 1594 2173 16344 34808)								0.252033	78.765581	85.636791	31	92	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	45953916	45953916	9690	10	T	C	C	C	637	49	MARCH8	4	4
JMJD1C	221037	broad.mit.edu	37	10	64973556	64973556	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:64973556G>A	uc001jmn.2	-	c.2371C>T	c.(2371-2373)CAT>TAT	p.H791Y	JMJD1C_uc001jml.2_Missense_Mutation_p.H572Y|JMJD1C_uc001jmm.2_Missense_Mutation_p.H503Y|JMJD1C_uc010qiq.1_Missense_Mutation_p.H609Y|JMJD1C_uc009xpi.2_Missense_Mutation_p.H609Y|JMJD1C_uc009xpj.1_Non-coding_Transcript|JMJD1C_uc001jmp.1_Missense_Mutation_p.H503Y	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	791					blood coagulation|oxidation-reduction process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)	5	Prostate(12;0.0119)|all_hematologic(501;0.191)													0.111111	6.477151	15.900415	7	56	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	64973556	64973556	8254	10	G	A	A	A	585	45	JMJD1C	2	2
MRVI1	10335	broad.mit.edu	37	11	10622488	10622488	+	Nonsense_Mutation	SNP	G	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:10622488G>T	uc010rcc.1	-	c.1994C>A	c.(1993-1995)TCA>TAA	p.S665*	MRVI1_uc001miw.2_Nonsense_Mutation_p.S656*|MRVI1_uc010rcb.1_Nonsense_Mutation_p.S657*|MRVI1_uc009ygb.1_Nonsense_Mutation_p.S350*|MRVI1_uc001mix.2_Nonsense_Mutation_p.S350*|MRVI1_uc001miz.2_Nonsense_Mutation_p.S574*|MRVI1_uc009ygc.1_Nonsense_Mutation_p.S574*|MRVI1_uc010rcd.1_Nonsense_Mutation_p.S459*|MRVI1_uc009ygd.1_Nonsense_Mutation_p.S350*|MRVI1_uc010rce.1_Non-coding_Transcript	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	638					platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)										0.170732	6.664208	10.950839	7	34	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	10622488	10622488	10246	11	G	T	T	T	585	45	MRVI1	5	2
TMEM86A	144110	broad.mit.edu	37	11	18722635	18722635	+	Silent	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:18722635G>A	uc001moz.1	+	c.177G>A	c.(175-177)CTG>CTA	p.L59L		NM_153347	NP_699178	Q8N2M4	TM86A_HUMAN	transmembrane protein 86A	59	Helical; (Potential).					integral to membrane				ovary(1)	1														0.283154	199.592722	211.331011	79	200	KEEP	---	---	---	---	capture		Silent	SNP	18722635	18722635	16747	11	G	A	A	A	600	47	TMEM86A	2	2
PTPN5	84867	broad.mit.edu	37	11	18763946	18763946	+	Nonsense_Mutation	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:18763946C>T	uc001mpd.2	-	c.588G>A	c.(586-588)TGG>TGA	p.W196*	PTPN5_uc001mpb.2_Nonsense_Mutation_p.W164*|PTPN5_uc001mpc.2_Nonsense_Mutation_p.W196*|PTPN5_uc001mpe.2_Nonsense_Mutation_p.W164*|PTPN5_uc010rdj.1_Nonsense_Mutation_p.W140*|PTPN5_uc001mpf.2_Nonsense_Mutation_p.W172*|PTPN5_uc010rdk.1_Nonsense_Mutation_p.W141*	NM_006906	NP_008837	P54829	PTN5_HUMAN	protein-tyrosine-phosphatase non-receptor 5	196						integral to membrane	phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(2)	2														0.45	80.847092	80.97231	27	33	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	18763946	18763946	13248	11	C	T	T	T	390	30	PTPN5	5	2
OR52K1	390036	broad.mit.edu	37	11	4510300	4510300	+	Missense_Mutation	SNP	T	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:4510300T>G	uc001lza.1	+	c.170T>G	c.(169-171)CTC>CGC	p.L57R		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)										0.060606	-43.076542	37.323354	24	372	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	4510300	4510300	11533	11	T	G	G	G	702	54	OR52K1	4	4
OR5D18	219438	broad.mit.edu	37	11	55587675	55587675	+	Silent	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:55587675C>T	uc010rin.1	+	c.570C>T	c.(568-570)TGC>TGT	p.C190C		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	190	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)												0.035156	-42.091609	17.986335	9	247	KEEP	---	---	---	---	capture		Silent	SNP	55587675	55587675	11567	11	C	T	T	T	363	28	OR5D18	2	2
OR6A2	8590	broad.mit.edu	37	11	6816142	6816142	+	Silent	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:6816142C>A	uc001mes.1	-	c.798G>T	c.(796-798)CGG>CGT	p.R266R		NM_003696	NP_003687	O95222	OR6A2_HUMAN	olfactory receptor, family 6, subfamily A,	266	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|pancreas(1)	4		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)										0.220532	130.439007	149.260212	58	205	KEEP	---	---	---	---	capture		Silent	SNP	6816142	6816142	11596	11	C	A	A	A	327	26	OR6A2	2	2
ACACB	32	broad.mit.edu	37	12	109629548	109629548	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:109629548C>T	uc001tob.2	+	c.2275C>T	c.(2275-2277)CTC>TTC	p.L759F	ACACB_uc001toc.2_Missense_Mutation_p.L759F	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	759	Biotin carboxylation.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|pancreas(1)	6					Biotin(DB00121)				p.L759V(SNU475-Tumor)	1843				0.205128	19.391362	22.526838	8	31	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	109629548	109629548	108	12	C	T	T	T	312	24	ACACB	2	2
IL31	386653	broad.mit.edu	37	12	122658429	122658429	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:122658429C>G	uc001ubv.2	-	c.127G>C	c.(127-129)GAG>CAG	p.E43Q	LRRC43_uc001ubw.3_Intron|LRRC43_uc009zxl.1_Intron	NM_001014336	NP_001014358	Q6EBC2	IL31_HUMAN	interleukin 31 precursor	43						extracellular space	cytokine activity			central_nervous_system(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;6.93e-05)|Breast(359;0.0544)		OV - Ovarian serous cystadenocarcinoma(86;3.27e-29)|Epithelial(86;4.86e-27)|BRCA - Breast invasive adenocarcinoma(302;0.223)										0.111111	9.948336	19.306518	7	56	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	122658429	122658429	7991	12	C	G	G	G	403	31	IL31	3	3
SYT10	341359	broad.mit.edu	37	12	33579267	33579267	+	Silent	SNP	A	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:33579267A>C	uc001rll.1	-	c.315T>G	c.(313-315)ACT>ACG	p.T105T	SYT10_uc009zju.1_5'UTR	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	105	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)	1	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)													0.376471	85.474207	86.614146	32	53	KEEP	---	---	---	---	capture		Silent	SNP	33579267	33579267	15987	12	A	C	C	C	80	7	SYT10	4	4
PDZRN4	29951	broad.mit.edu	37	12	41967451	41967451	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:41967451G>A	uc010skn.1	+	c.2273G>A	c.(2272-2274)CGC>CAC	p.R758H	PDZRN4_uc001rmq.3_Missense_Mutation_p.R699H|PDZRN4_uc009zjz.2_Missense_Mutation_p.R697H|PDZRN4_uc001rmr.2_Missense_Mutation_p.R584H	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	957	Poly-Arg.						ubiquitin-protein ligase activity|zinc ion binding			lung(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	8	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)								467				0.261261	130.977875	142.356463	58	164	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	41967451	41967451	12131	12	G	A	A	A	494	38	PDZRN4	1	1
MLL2	8085	broad.mit.edu	37	12	49420852	49420852	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:49420852C>A	uc001rta.3	-	c.14897G>T	c.(14896-14898)CGG>CTG	p.R4966L		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4966	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of gene-specific transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|promoter binding|protein binding|zinc ion binding			kidney(16)|lung(4)|skin(4)|ovary(3)|pancreas(2)	29														0.454545	120.60696	120.762036	40	48	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	49420852	49420852	10011	12	C	A	A	A	299	23	MLL2	1	1
LPCAT3	10162	broad.mit.edu	37	12	7090771	7090771	+	Silent	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:7090771G>A	uc001qsi.2	-	c.483C>T	c.(481-483)GAC>GAT	p.D161D	EMG1_uc010sfv.1_Intron|LPCAT3_uc010sfw.1_Silent_p.D55D|LPCAT3_uc009zfp.2_Non-coding_Transcript|LPCAT3_uc010sfx.1_Intron|LPCAT3_uc009zfq.1_Silent_p.D19D	NM_005768	NP_005759	Q6P1A2	MBOA5_HUMAN	lysophosphatidylcholine acyltransferase 3	161					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity			ovary(1)	1														0.04386	-15.876673	9.484323	5	109	KEEP	---	---	---	---	capture		Silent	SNP	7090771	7090771	9285	12	G	A	A	A	516	40	LPCAT3	1	1
ITGBL1	9358	broad.mit.edu	37	13	102220122	102220122	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:102220122C>T	uc001vpb.2	+	c.389C>T	c.(388-390)ACT>ATT	p.T130I	ITGBL1_uc010agb.2_Intron|ITGBL1_uc001vpc.3_5'UTR	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	130	II.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)													0.126761	67.857656	116.077163	45	310	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	102220122	102220122	8206	13	C	T	T	T	260	20	ITGBL1	2	2
DACT1	51339	broad.mit.edu	37	14	59112172	59112172	+	Silent	SNP	T	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:59112172T>A	uc001xdw.2	+	c.831T>A	c.(829-831)GCT>GCA	p.A277A	DACT1_uc010trv.1_5'UTR|DACT1_uc001xdx.2_Silent_p.A240A|DACT1_uc010trw.1_5'UTR	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	277					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5														0.319277	148.816538	153.63446	53	113	KEEP	---	---	---	---	capture		Silent	SNP	59112172	59112172	4388	14	T	A	A	A	704	55	DACT1	3	3
DACT1	51339	broad.mit.edu	37	14	59112495	59112495	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:59112495C>T	uc001xdw.2	+	c.1154C>T	c.(1153-1155)TCA>TTA	p.S385L	DACT1_uc010trv.1_Missense_Mutation_p.S104L|DACT1_uc001xdx.2_Missense_Mutation_p.S348L|DACT1_uc010trw.1_Missense_Mutation_p.S104L	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	385					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5														0.177778	44.308551	57.527735	24	111	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	59112495	59112495	4388	14	C	T	T	T	377	29	DACT1	2	2
ITGAD	3681	broad.mit.edu	37	16	31434738	31434738	+	Silent	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:31434738C>T	uc010cap.1	+	c.2928C>T	c.(2926-2928)AAC>AAT	p.N976N	ITGAD_uc002ebv.1_Silent_p.N975N	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	975	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1														0.134328	9.133587	17.852253	9	58	KEEP	---	---	---	---	capture		Silent	SNP	31434738	31434738	8188	16	C	T	T	T	246	19	ITGAD	1	1
C16orf78	123970	broad.mit.edu	37	16	49430501	49430501	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:49430501C>T	uc002efr.2	+	c.562C>T	c.(562-564)CGC>TGC	p.R188C		NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970	188										central_nervous_system(1)	1														0.161765	18.038494	25.396631	11	57	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	49430501	49430501	1888	16	C	T	T	T	247	19	C16orf78	1	1
CHD9	80205	broad.mit.edu	37	16	53190555	53190555	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:53190555A>G	uc002ehb.2	+	c.554A>G	c.(553-555)AAT>AGT	p.N185S	CHD9_uc002egy.2_Missense_Mutation_p.N185S|CHD9_uc002egz.1_Missense_Mutation_p.N185S|CHD9_uc002eha.1_Missense_Mutation_p.N185S|CHD9_uc002ehc.2_Missense_Mutation_p.N185S	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	185					cellular lipid metabolic process|chromatin assembly or disassembly|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin|cytoplasm|nucleoplasm	ATP binding|chromatin binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)								1157				0.237443	139.000657	152.791407	52	167	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	53190555	53190555	3466	16	A	G	G	G	52	4	CHD9	4	4
FHOD1	29109	broad.mit.edu	37	16	67264062	67264062	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:67264062C>G	uc002esl.2	-	c.3121G>C	c.(3121-3123)GGG>CGG	p.G1041R	FHOD1_uc002esk.2_Missense_Mutation_p.G100R|FHOD1_uc010ced.2_Missense_Mutation_p.G848R	NM_013241	NP_037373	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	1041					actin cytoskeleton organization	cytoplasm|cytoskeleton|nucleus	actin binding			breast(2)|ovary(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)										0.292683	32.586098	34.162892	12	29	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	67264062	67264062	6120	16	C	G	G	G	299	23	FHOD1	3	3
PRDM7	11105	broad.mit.edu	37	16	90124775	90124775	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:90124775C>G	uc010cje.2	-	c.1401G>C	c.(1399-1401)AGG>AGC	p.R467S	PRDM7_uc002fqo.2_Missense_Mutation_p.G167A|PRDM7_uc010cjf.2_Missense_Mutation_p.G256A	NM_001098173	NP_001091643	Q9NQW5	PRDM7_HUMAN	PR domain containing 7 isoform 1	467						chromosome|nucleus	nucleic acid 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;0.0278)										0.147887	40.182698	57.085528	21	121	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	90124775	90124775	12904	16	C	G	G	G	390	30	PRDM7	3	3
CPD	1362	broad.mit.edu	37	17	28776721	28776721	+	Silent	SNP	A	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:28776721A>T	uc002hfb.1	+	c.3024A>T	c.(3022-3024)GCA>GCT	p.A1008A	CPD_uc010wbo.1_Silent_p.A761A|CPD_uc010wbp.1_Intron	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	1008	Extracellular (Potential).|Carboxypeptidase-like 3.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)	1														0.316062	172.598474	178.410225	61	132	KEEP	---	---	---	---	capture		Silent	SNP	28776721	28776721	3936	17	A	T	T	T	80	7	CPD	3	3
ITGA3	3675	broad.mit.edu	37	17	48165215	48165215	+	Silent	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:48165215C>T	uc010dbm.2	+	c.3027C>T	c.(3025-3027)ATC>ATT	p.I1009I	ITGA3_uc010dbl.2_Silent_p.I1009I	NM_005501	NP_005492	P26006	ITA3_HUMAN	integrin alpha 3 isoform b precursor	1009	Helical; (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3														0.27907	28.574156	30.467506	12	31	KEEP	---	---	---	---	capture		Silent	SNP	48165215	48165215	8181	17	C	T	T	T	369	29	ITGA3	2	2
TMEM104	54868	broad.mit.edu	37	17	72832070	72832070	+	Silent	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:72832070C>T	uc002jls.3	+	c.735C>T	c.(733-735)TTC>TTT	p.F245F	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Silent_p.F245F	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	245	Helical; (Potential).					integral to membrane					0	all_lung(278;0.23)													0.148148	30.285867	46.411001	20	115	KEEP	---	---	---	---	capture		Silent	SNP	72832070	72832070	16548	17	C	T	T	T	402	31	TMEM104	1	1
DSEL	92126	broad.mit.edu	37	18	65180855	65180855	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:65180855C>G	uc002lke.1	-	c.1021G>C	c.(1021-1023)GAT>CAT	p.D341H		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	331						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)	5		Esophageal squamous(42;0.129)												0.053763	-8.204484	11.330163	5	88	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	65180855	65180855	4959	18	C	G	G	G	416	32	DSEL	3	3
LAMA1	284217	broad.mit.edu	37	18	7026049	7026049	+	Silent	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:7026049G>A	uc002knm.2	-	c.2331C>T	c.(2329-2331)TAC>TAT	p.Y777Y	LAMA1_uc010wzj.1_Silent_p.Y253Y	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	777	Laminin EGF-like 6.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|breast(2)|pancreas(2)|central_nervous_system(1)	17		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)					1597				0.1875	5.414658	6.879615	3	13	KEEP	---	---	---	---	capture		Silent	SNP	7026049	7026049	8928	18	G	A	A	A	516	40	LAMA1	1	1
PGLYRP2	114770	broad.mit.edu	37	19	15587253	15587253	+	Silent	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:15587253G>C	uc002nbg.3	-	c.228C>G	c.(226-228)CTC>CTG	p.L76L	PGLYRP2_uc002nbf.3_Silent_p.L76L	NM_052890	NP_443122	Q96PD5	PGRP2_HUMAN	peptidoglycan recognition protein 2 precursor	76					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptide amidation|peptidoglycan catabolic process	extracellular region|intracellular|membrane	metal ion binding|N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity			ovary(3)	3														0.132075	11.80722	18.761722	7	46	KEEP	---	---	---	---	capture		Silent	SNP	15587253	15587253	12217	19	G	C	C	C	574	45	PGLYRP2	3	3
OR10H3	26532	broad.mit.edu	37	19	15852739	15852739	+	Silent	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:15852739C>T	uc010xoq.1	+	c.537C>T	c.(535-537)CTC>CTT	p.L179L		NM_013938	NP_039226	O60404	O10H3_HUMAN	olfactory receptor, family 10, subfamily H,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0														0.170418	103.388196	135.347095	53	258	KEEP	---	---	---	---	capture		Silent	SNP	15852739	15852739	11313	19	C	T	T	T	405	32	OR10H3	2	2
SYMPK	8189	broad.mit.edu	37	19	46355635	46355635	+	Silent	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:46355635G>A	uc002pdn.2	-	c.234C>T	c.(232-234)ATC>ATT	p.I78I	SYMPK_uc002pdo.1_Silent_p.I78I|SYMPK_uc002pdp.1_Silent_p.I78I|SYMPK_uc002pdq.1_Silent_p.I78I	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	78	Interaction with HSF1.				cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)										0.107345	14.666064	41.689137	19	158	KEEP	---	---	---	---	capture		Silent	SNP	46355635	46355635	15960	19	G	A	A	A	473	37	SYMPK	1	1
CCDC114	93233	broad.mit.edu	37	19	48800927	48800927	+	Splice_Site_SNP	SNP	T	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:48800927T>A	uc002pir.2	-	c.1392_splice	c.e13-1	p.L464_splice	CCDC114_uc002piq.2_Splice_Site_SNP_p.L273_splice|CCDC114_uc002pio.2_Intron	NM_144577	NP_653178			coiled-coil domain containing 114 isoform 2											ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)										0.421053	25.898303	26.001278	8	11	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	48800927	48800927	2871	19	T	A	A	A	715	55	CCDC114	5	3
NDUFS2	4720	broad.mit.edu	37	1	161183976	161183976	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:161183976A>G	uc001fyv.2	+	c.1385A>G	c.(1384-1386)GAT>GGT	p.D462G	NDUFS2_uc001fyw.2_3'UTR|NDUFS2_uc010pkj.1_3'UTR|NDUFS2_uc001fyx.2_Missense_Mutation_p.D436G|FCER1G_uc001fyz.1_5'Flank|FCER1G_uc001fza.1_5'Flank	NM_004550	NP_004541	O75306	NDUS2_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 2	462					mitochondrial electron transport, NADH to ubiquinone|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity|protein binding|quinone binding				0	all_cancers(52;1.16e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		NADH(DB00157)									0.172043	31.866258	41.455806	16	77	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	161183976	161183976	10691	1	A	G	G	G	156	12	NDUFS2	4	4
LGR6	59352	broad.mit.edu	37	1	202245609	202245609	+	Missense_Mutation	SNP	C	T	T	rs117583891	by1000genomes	TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:202245609C>T	uc001gxu.2	+	c.604C>T	c.(604-606)CCC>TCC	p.P202S	LGR6_uc001gxv.2_Missense_Mutation_p.P150S|LGR6_uc009xab.2_Non-coding_Transcript|LGR6_uc001gxw.2_Intron|LGR6_uc009xac.1_Non-coding_Transcript	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	202	LRR 5.|Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|pancreas(1)	8														0.238095	10.855632	12.182221	5	16	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	202245609	202245609	9084	1	C	T	T	T	286	22	LGR6	2	2
PTPN14	5784	broad.mit.edu	37	1	214638116	214638116	+	Silent	SNP	G	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:214638116G>T	uc001hkk.1	-	c.31C>A	c.(31-33)CGG>AGG	p.R11R	PTPN14_uc010pty.1_Intron	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	11						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		Colon(92;557 1424 24372 34121 40073)								0.059259	-9.753279	17.641101	8	127	KEEP	---	---	---	---	capture		Silent	SNP	214638116	214638116	13238	1	G	T	T	T	519	40	PTPN14	1	1
EPHA8	2046	broad.mit.edu	37	1	22924648	22924648	+	Silent	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:22924648C>T	uc001bfx.1	+	c.2121C>T	c.(2119-2121)CGC>CGT	p.R707R		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	707	Cytoplasmic (Potential).|Protein kinase.				protein phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|lung(2)|breast(2)|large_intestine(1)|stomach(1)|skin(1)	12		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)						520				0.25	22.729432	25.003819	10	30	KEEP	---	---	---	---	capture		Silent	SNP	22924648	22924648	5366	1	C	T	T	T	327	26	EPHA8	2	2
RYR2	6262	broad.mit.edu	37	1	237954780	237954780	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:237954780G>A	uc001hyl.1	+	c.13528G>A	c.(13528-13530)GCA>ACA	p.A4510T	RYR2_uc010pyb.1_5'Flank	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4510	Helical; Name=M5; (Potential).		A -> T (in CPVT1).		cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)											0.103448	2.205171	6.7447	3	26	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	237954780	237954780	14249	1	G	A	A	A	494	38	RYR2	1	1
OR2L2	26246	broad.mit.edu	37	1	248202307	248202307	+	Silent	SNP	A	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:248202307A>G	uc001idw.2	+	c.738A>G	c.(736-738)GTA>GTG	p.V246V	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	246	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)											0.029221	-56.46773	18.547889	9	299	KEEP	---	---	---	---	capture		Silent	SNP	248202307	248202307	11413	1	A	G	G	G	184	15	OR2L2	4	4
ORC1L	4998	broad.mit.edu	37	1	52850896	52850896	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:52850896C>T	uc001ctt.2	-	c.1520G>A	c.(1519-1521)CGG>CAG	p.R507Q	ORC1L_uc010oni.1_Missense_Mutation_p.R502Q|ORC1L_uc001ctu.2_Missense_Mutation_p.R507Q|ORC1L_uc009vzd.2_Missense_Mutation_p.R261Q	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	507	Necessary and sufficient for ORC complex assembly.				cell cycle checkpoint|DNA-dependent DNA replication initiation|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	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0														0.112108	24.867999	58.001781	25	198	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	52850896	52850896	11672	1	C	T	T	T	299	23	ORC1L	1	1
ZCCHC11	23318	broad.mit.edu	37	1	52926838	52926838	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:52926838A>G	uc001cty.2	-	c.3289T>C	c.(3289-3291)TAT>CAT	p.Y1097H	ZCCHC11_uc001ctx.2_Missense_Mutation_p.Y1097H|ZCCHC11_uc001ctz.2_Missense_Mutation_p.Y1097H|ZCCHC11_uc009vze.1_Missense_Mutation_p.Y1097H|ZCCHC11_uc009vzf.1_Missense_Mutation_p.Y856H|ZCCHC11_uc001cua.1_Missense_Mutation_p.Y14H	NM_001009881	NP_001009881	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	1097					miRNA catabolic process|pre-microRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2														0.113636	26.943276	52.796673	20	156	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	52926838	52926838	18168	1	A	G	G	G	182	14	ZCCHC11	4	4
HFM1	164045	broad.mit.edu	37	1	91813032	91813032	+	Silent	SNP	A	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:91813032A>C	uc001doa.3	-	c.2208T>G	c.(2206-2208)GGT>GGG	p.G736G	HFM1_uc009wdb.2_Non-coding_Transcript|HFM1_uc010osu.1_Silent_p.G415G|HFM1_uc001dob.3_5'UTR|HFM1_uc010osv.1_Silent_p.G420G	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	736							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)										0.263889	51.294362	54.922187	19	53	KEEP	---	---	---	---	capture		Silent	SNP	91813032	91813032	7366	1	A	C	C	C	15	2	HFM1	4	4
LPPR4	9890	broad.mit.edu	37	1	99771802	99771802	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:99771802C>A	uc001dse.2	+	c.1528C>A	c.(1528-1530)CCC>ACC	p.P510T	LPPR4_uc010oue.1_Missense_Mutation_p.P452T	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	510							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)										0.162722	198.244528	271.174818	110	566	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	99771802	99771802	9300	1	C	A	A	A	286	22	LPPR4	2	2
DEFB124	245937	broad.mit.edu	37	20	30053333	30053333	+	Silent	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:30053333C>T	uc002wvz.1	-	c.192G>A	c.(190-192)CCG>CCA	p.P64P		NM_001037500	NP_001032589	Q8NES8	DB124_HUMAN	beta-defensin 124 precursor	64					defense response to bacterium	extracellular region					0	Lung NSC(7;0.000139)|all_lung(7;0.000197)|all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)											0.145299	29.181498	43.271455	17	100	KEEP	---	---	---	---	capture		Silent	SNP	30053333	30053333	4587	20	C	T	T	T	288	23	DEFB124	1	1
PTGIS	5740	broad.mit.edu	37	20	48130814	48130814	+	Nonsense_Mutation	SNP	G	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:48130814G>T	uc002xut.2	-	c.974C>A	c.(973-975)TCG>TAG	p.S325*	PTGIS_uc010zyi.1_Nonsense_Mutation_p.S186*	NM_000961	NP_000952	Q16647	PTGIS_HUMAN	prostaglandin I2 synthase	325					hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|prostaglandin-I synthase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(12;2.37e-05)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)		Phenylbutazone(DB00812)									0.18254	84.478283	108.372061	46	206	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	48130814	48130814	13207	20	G	T	T	T	481	37	PTGIS	5	1
ZNF295	49854	broad.mit.edu	37	21	43414130	43414130	+	Silent	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr21:43414130G>C	uc002zab.3	-	c.75C>G	c.(73-75)CTC>CTG	p.L25L	ZNF295_uc002yzz.3_Silent_p.L25L|ZNF295_uc002yzy.3_Silent_p.L25L|ZNF295_uc002zaa.3_Silent_p.L25L|ZNF295_uc010gov.1_Silent_p.L25L|ZNF295_uc002zac.2_Silent_p.L25L	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	25					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	methyl-CpG binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2														0.084337	4.827802	33.937108	14	152	KEEP	---	---	---	---	capture		Silent	SNP	43414130	43414130	18419	21	G	C	C	C	574	45	ZNF295	3	3
CLTCL1	8218	broad.mit.edu	37	22	19222082	19222082	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:19222082C>T	uc002zpb.2	-	c.1117G>A	c.(1117-1119)GCA>ACA	p.A373T	CLTCL1_uc011agv.1_Missense_Mutation_p.A373T|CLTCL1_uc011agw.1_Missense_Mutation_p.A373T	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	373	Globular terminal domain.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)									1206				0.621469	309.411212	311.749317	110	67	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	19222082	19222082	3705	22	C	T	T	T	325	25	CLTCL1	2	2
IL1RL1	9173	broad.mit.edu	37	2	102956715	102956715	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:102956715C>A	uc002tbu.1	+	c.430C>A	c.(430-432)CCT>ACT	p.P144T	IL1RL1_uc010ywa.1_Missense_Mutation_p.P27T|IL18R1_uc002tbw.3_Intron|IL1RL1_uc002tbv.2_Missense_Mutation_p.P144T	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	144	Ig-like C2-type 2.|Extracellular (Potential).				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			ovary(1)|central_nervous_system(1)|skin(1)	3														0.220994	86.895056	99.893513	40	141	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	102956715	102956715	7964	2	C	A	A	A	234	18	IL1RL1	2	2
LRP1B	53353	broad.mit.edu	37	2	141806744	141806744	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:141806744T>C	uc002tvj.1	-	c.1600A>G	c.(1600-1602)ATT>GTT	p.I534V	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	534	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|ovary(10)|pancreas(3)|central_nervous_system(2)|liver(1)|kidney(1)	34		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		Colon(99;50 2074 2507 20106)				2546	TSP Lung(27;0.18)			0.095785	18.688387	61.461871	25	236	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	141806744	141806744	9328	2	T	C	C	C	676	52	LRP1B	4	4
NBAS	51594	broad.mit.edu	37	2	15519843	15519843	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:15519843T>A	uc002rcc.1	-	c.3473A>T	c.(3472-3474)AAA>ATA	p.K1158I	NBAS_uc010exl.1_Missense_Mutation_p.K230I|NBAS_uc002rcd.1_Non-coding_Transcript	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1158										ovary(2)|liver(1)	3														0.275148	225.013937	240.418391	93	245	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	15519843	15519843	10582	2	T	A	A	A	832	64	NBAS	3	3
STRADB	55437	broad.mit.edu	37	2	202342454	202342454	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:202342454G>C	uc002uyd.3	+	c.661G>C	c.(661-663)GAT>CAT	p.D221H		NM_018571	NP_061041	Q9C0K7	STRAB_HUMAN	STE20-related kinase adaptor beta	221	Protein kinase.				activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|protein phosphorylation|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|protein binding|protein kinase activity			lung(1)|skin(1)	2										169				0.119565	28.713907	54.861275	22	162	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	202342454	202342454	15845	2	G	C	C	C	585	45	STRADB	3	3
STRADB	55437	broad.mit.edu	37	2	202342907	202342907	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:202342907G>C	uc002uyd.3	+	c.818G>C	c.(817-819)AGA>ACA	p.R273T		NM_018571	NP_061041	Q9C0K7	STRAB_HUMAN	STE20-related kinase adaptor beta	273	Protein kinase.				activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|protein phosphorylation|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|protein binding|protein kinase activity			lung(1)|skin(1)	2										169				0.113095	23.820401	48.867105	19	149	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	202342907	202342907	15845	2	G	C	C	C	429	33	STRADB	3	3
UGT1A4	54657	broad.mit.edu	37	2	234628292	234628292	+	Missense_Mutation	SNP	A	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:234628292A>C	uc002vux.2	+	c.826A>C	c.(826-828)ATT>CTT	p.I276L	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Missense_Mutation_p.I276L	NM_007120	NP_009051	P22310	UD14_HUMAN	UDP glycosyltransferase 1 family, polypeptide A4	276					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity				0		Breast(86;0.000765)|all_lung(227;0.00266)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0456)|Lung SC(224;0.128)		Epithelial(121;3.49e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000504)|Lung(119;0.0026)|LUSC - Lung squamous cell carcinoma(224;0.00624)	Imipramine(DB00458)|Lamotrigine(DB00555)|Paricalcitol(DB00910)|Trifluoperazine(DB00831)	Melanoma(99;1011 1962 13201 26492)								0.043478	-25.067414	16.244644	8	176	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	234628292	234628292	17505	2	A	C	C	C	104	8	UGT1A4	4	4
PRR21	643905	broad.mit.edu	37	2	240982045	240982045	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:240982045G>C	uc010zod.1	-	c.355C>G	c.(355-357)CCT>GCT	p.P119A		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	119	Pro-rich.									ovary(1)	1														0.090909	1.799526	7.3669	3	30	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	240982045	240982045	13040	2	G	C	C	C	546	42	PRR21	3	3
EPT1	85465	broad.mit.edu	37	2	26596288	26596288	+	Nonsense_Mutation	SNP	G	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:26596288G>T	uc010ykz.1	+	c.364G>T	c.(364-366)GAG>TAG	p.E122*	EPT1_uc010eyl.1_Non-coding_Transcript	NM_033505	NP_277040	Q9C0D9	EPT1_HUMAN	selenoprotein I	122					phospholipid biosynthetic process	integral to membrane	ethanolaminephosphotransferase activity|metal ion binding				0														0.115385	5.420407	12.991929	6	46	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	26596288	26596288	5392	2	G	T	T	T	533	41	EPT1	5	2
C2orf56	55471	broad.mit.edu	37	2	37475310	37475310	+	Silent	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:37475310G>C	uc002rqa.3	+	c.1143G>C	c.(1141-1143)GTG>GTC	p.V381V	C2orf56_uc002rqc.3_Silent_p.V283V|C2orf56_uc010ynk.1_Silent_p.V310V|C2orf56_uc010ynl.1_Silent_p.V354V|C2orf56_uc010fah.2_Non-coding_Transcript	NM_144736	NP_653337	Q7L592	MIDA_HUMAN	hypothetical protein LOC55471 isoform 1	381					mitochondrial respiratory chain complex I assembly	mitochondrion	enzyme binding|methyltransferase activity			central_nervous_system(1)	1		all_hematologic(82;0.21)												0.080808	2.222624	19.950398	8	91	KEEP	---	---	---	---	capture		Silent	SNP	37475310	37475310	2265	2	G	C	C	C	574	45	C2orf56	3	3
TACR1	6869	broad.mit.edu	37	2	75347863	75347863	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:75347863G>A	uc002sng.2	-	c.421C>T	c.(421-423)CGG>TGG	p.R141W	TACR1_uc002snh.2_Missense_Mutation_p.R141W	NM_001058	NP_001049	P25103	NK1R_HUMAN	tachykinin receptor 1 isoform long	141	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|detection of abiotic stimulus|mechanosensory behavior	integral to plasma membrane	protein binding			ovary(1)	1					Aprepitant(DB00673)|Ketamine(DB01221)|Vapreotide(DB04894)	Pancreas(64;62 1268 3653 14826 43765)								0.075472	-3.478002	16.139806	8	98	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	75347863	75347863	16026	2	G	A	A	A	506	39	TACR1	1	1
KDM3A	55818	broad.mit.edu	37	2	86716548	86716548	+	Nonsense_Mutation	SNP	G	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:86716548G>T	uc002sri.3	+	c.3421G>T	c.(3421-3423)GAG>TAG	p.E1141*	KDM3A_uc010ytj.1_Nonsense_Mutation_p.E1141*|KDM3A_uc010ytk.1_Nonsense_Mutation_p.E1089*	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	1141	JmjC.				androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|oxidation-reduction process|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)	4						NSCLC(96;1150 1523 6936 46253 49736)								0.127854	33.745661	63.321136	28	191	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	86716548	86716548	8432	2	G	T	T	T	585	45	KDM3A	5	2
DNAJC13	23317	broad.mit.edu	37	3	132175372	132175372	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:132175372G>C	uc003eor.2	+	c.1127G>C	c.(1126-1128)AGG>ACG	p.R376T	DNAJC13_uc010htq.1_Missense_Mutation_p.R376T|DNAJC13_uc003eos.1_Missense_Mutation_p.R43T	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	376							heat shock protein binding			breast(1)	1														0.173913	22.754339	29.683461	12	57	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	132175372	132175372	4815	3	G	C	C	C	455	35	DNAJC13	3	3
IL12A	3592	broad.mit.edu	37	3	159711626	159711626	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:159711626A>T	uc003fcx.2	+	c.601A>T	c.(601-603)ATG>TTG	p.M201L		NM_000882	NP_000873	P29459	IL12A_HUMAN	interleukin 12A precursor	167					cell cycle arrest|cell migration|defense response to Gram-positive bacterium|immune response|negative regulation of interleukin-17 production|negative regulation of smooth muscle cell proliferation|positive regulation of cell adhesion|positive regulation of interferon-gamma production|positive regulation of natural killer cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|positive regulation of NK T cell activation|positive regulation of smooth muscle cell apoptosis|positive regulation of T cell mediated cytotoxicity|positive regulation of tyrosine phosphorylation of Stat4 protein|response to lipopolysaccharide|response to UV-B|response to virus	interleukin-12 complex	cytokine activity|growth factor activity|interleukin-12 receptor binding|interleukin-27 binding|protein heterodimerization activity				0			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)											0.271028	71.914191	76.986875	29	78	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	159711626	159711626	7925	3	A	T	T	T	156	12	IL12A	3	3
OXNAD1	92106	broad.mit.edu	37	3	16343199	16343199	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:16343199G>C	uc011awb.1	+	c.553G>C	c.(553-555)GAT>CAT	p.D185H	OXNAD1_uc010her.1_Non-coding_Transcript|OXNAD1_uc003caw.2_Missense_Mutation_p.D167H|OXNAD1_uc003cax.2_Missense_Mutation_p.D167H	NM_138381	NP_612390	Q96HP4	OXND1_HUMAN	oxidoreductase NAD-binding domain containing 1	167	FAD-binding FR-type.				oxidation-reduction process		oxidoreductase activity				0														0.246575	49.01495	53.281897	18	55	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	16343199	16343199	11746	3	G	C	C	C	533	41	OXNAD1	3	3
VPS8	23355	broad.mit.edu	37	3	184586748	184586748	+	Silent	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:184586748C>G	uc003fpb.1	+	c.1515C>G	c.(1513-1515)CTC>CTG	p.L505L	VPS8_uc010hyd.1_Silent_p.L505L	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	507							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)											0.123077	8.848473	17.896885	8	57	KEEP	---	---	---	---	capture		Silent	SNP	184586748	184586748	17785	3	C	G	G	G	379	30	VPS8	3	3
IL17RD	54756	broad.mit.edu	37	3	57131837	57131837	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:57131837C>G	uc003dil.2	-	c.1894G>C	c.(1894-1896)GAG>CAG	p.E632Q	IL17RD_uc003dik.2_Missense_Mutation_p.E608Q|IL17RD_uc010hna.2_Missense_Mutation_p.E488Q|IL17RD_uc011bex.1_Missense_Mutation_p.E488Q	NM_017563	NP_060033	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D precursor	632	Cytoplasmic (Potential).					Golgi membrane|integral to membrane|plasma membrane	receptor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)						213				0.222222	8.481164	9.77018	4	14	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	57131837	57131837	7943	3	C	G	G	G	390	30	IL17RD	3	3
OTUD4	54726	broad.mit.edu	37	4	146073745	146073745	+	Nonsense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:146073745G>A	uc003ika.3	-	c.721C>T	c.(721-723)CAA>TAA	p.Q241*	OTUD4_uc003ijz.3_Nonsense_Mutation_p.Q240*	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	305							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)													0.065574	-6.30128	17.600014	8	114	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	146073745	146073745	11727	4	G	A	A	A	585	45	OTUD4	5	2
SPATA4	132851	broad.mit.edu	37	4	177113981	177113981	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:177113981T>A	uc003iuo.1	-	c.485A>T	c.(484-486)GAT>GTT	p.D162V		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	162					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)										0.095238	1.968788	8.875048	4	38	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	177113981	177113981	15520	4	T	A	A	A	650	50	SPATA4	3	3
SLC12A2	6558	broad.mit.edu	37	5	127485706	127485706	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:127485706G>A	uc003kus.2	+	c.2023G>A	c.(2023-2025)GCA>ACA	p.A675T	SLC12A2_uc010jdf.2_Non-coding_Transcript|SLC12A2_uc010jdg.2_Missense_Mutation_p.A675T	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	675	Helical; (Potential).				potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(2)	2		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)									0.186441	44.384065	55.252187	22	96	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	127485706	127485706	14878	5	G	A	A	A	598	46	SLC12A2	2	2
PCDHA11	56138	broad.mit.edu	37	5	140250227	140250227	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:140250227C>G	uc003lia.2	+	c.1539C>G	c.(1537-1539)AGC>AGG	p.S513R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.S513R	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	513	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)											0.163636	16.296738	22.165383	9	46	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	140250227	140250227	11941	5	C	G	G	G	350	27	PCDHA11	3	3
FAM71B	153745	broad.mit.edu	37	5	156592666	156592666	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:156592666C>T	uc003lwn.2	-	c.514G>A	c.(514-516)GTC>ATC	p.V172I		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	172						nucleus				ovary(3)|pancreas(1)	4	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)											0.065625	-23.38487	39.330921	21	299	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	156592666	156592666	5831	5	C	T	T	T	221	17	FAM71B	2	2
LCP2	3937	broad.mit.edu	37	5	169683562	169683562	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:169683562T>A	uc003man.1	-	c.1118A>T	c.(1117-1119)CAG>CTG	p.Q373L	LCP2_uc011des.1_Missense_Mutation_p.Q168L|LCP2_uc011det.1_Missense_Mutation_p.Q202L	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	373					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)										0.252577	123.938655	134.769633	49	145	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	169683562	169683562	9016	5	T	A	A	A	715	55	LCP2	3	3
LRRC14B	389257	broad.mit.edu	37	5	194830	194830	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:194830C>A	uc003jal.1	+	c.907C>A	c.(907-909)CAG>AAG	p.Q303K		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	303	LRR 2.									skin(1)	1														0.093023	2.666787	9.831012	4	39	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	194830	194830	9343	5	C	A	A	A	221	17	LRRC14B	2	2
CDH6	1004	broad.mit.edu	37	5	31317548	31317548	+	Missense_Mutation	SNP	T	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:31317548T>G	uc003jhe.1	+	c.1579T>G	c.(1579-1581)TTG>GTG	p.L527V	CDH6_uc003jhd.1_Missense_Mutation_p.L527V	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	527	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|large_intestine(1)	5														0.103896	3.091777	27.181979	16	138	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	31317548	31317548	3243	5	T	G	G	G	725	56	CDH6	4	4
C5orf42	65250	broad.mit.edu	37	5	37173990	37173990	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:37173990C>G	uc011cpa.1	-	c.6038G>C	c.(6037-6039)GGA>GCA	p.G2013A	C5orf42_uc011coy.1_Missense_Mutation_p.G513A|C5orf42_uc003jks.2_Non-coding_Transcript|C5orf42_uc011coz.1_Missense_Mutation_p.G1088A|C5orf42_uc003jkr.1_Missense_Mutation_p.G46A	NM_023073	NP_075561	B7ZLV7	B7ZLV7_HUMAN	hypothetical protein LOC65250	926										ovary(4)|breast(2)	6	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)											0.088235	4.7994	28.109231	12	124	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	37173990	37173990	2399	5	C	G	G	G	390	30	C5orf42	3	3
AHRR	57491	broad.mit.edu	37	5	428103	428103	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:428103C>T	uc003jav.2	+	c.956C>T	c.(955-957)GCA>GTA	p.A319V	AHRR_uc003jaw.2_Missense_Mutation_p.A297V|AHRR_uc010isy.2_Missense_Mutation_p.A147V|AHRR_uc010isz.2_Missense_Mutation_p.A297V|AHRR_uc003jax.2_Missense_Mutation_p.A60V|AHRR_uc003jay.2_Missense_Mutation_p.A157V	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	301					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity|transcription regulator activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)											0.346154	24.366832	24.910288	9	17	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	428103	428103	420	5	C	T	T	T	325	25	AHRR	2	2
IPO11	51194	broad.mit.edu	37	5	61772530	61772530	+	Missense_Mutation	SNP	A	G	G	rs35107530	byFrequency	TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:61772530A>G	uc011cqr.1	+	c.898A>G	c.(898-900)AAT>GAT	p.N300D	IPO11_uc003jtc.2_Missense_Mutation_p.N260D|IPO11_uc003jtb.1_Missense_Mutation_p.N260D	NM_001134779	NP_001128251	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 1	260						cytoplasm|nucleus	protein binding			lung(2)|skin(1)	3		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)										0.045977	-9.870445	9.265385	4	83	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	61772530	61772530	8094	5	A	G	G	G	169	13	IPO11	4	4
RGMB	285704	broad.mit.edu	37	5	98128864	98128864	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:98128864G>T	uc003knc.2	+	c.844G>T	c.(844-846)GCC>TCC	p.A282S		NM_001012761	NP_001012779	Q6NW40	RGMB_HUMAN	RGM domain family, member B	241					axon guidance|BMP signaling pathway|cell adhesion|positive regulation of transcription, DNA-dependent	anchored to plasma membrane|ER-Golgi intermediate compartment|membrane raft	identical protein binding				0		all_cancers(142;2.76e-08)|all_epithelial(76;2.98e-11)|all_lung(232;0.000485)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0587)										0.280899	57.445177	61.283668	25	64	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	98128864	98128864	13754	5	G	T	T	T	546	42	RGMB	2	2
SIM1	6492	broad.mit.edu	37	6	100838300	100838300	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:100838300C>A	uc003pqj.3	-	c.2238G>T	c.(2236-2238)AGG>AGT	p.R746S	SIM1_uc010kcu.2_Missense_Mutation_p.R746S	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	746	Single-minded C-terminal.				cell differentiation|nervous system development|regulation of transcription, DNA-dependent	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)										0.150538	41.00468	62.765912	28	158	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	100838300	100838300	14818	6	C	A	A	A	389	30	SIM1	2	2
LIN28B	389421	broad.mit.edu	37	6	105474353	105474353	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:105474353G>T	uc003pqv.1	+	c.379G>T	c.(379-381)GAT>TAT	p.D127Y	LIN28B_uc010kda.1_Missense_Mutation_p.D87Y	NM_001004317	NP_001004317	Q6ZN17	LN28B_HUMAN	lin-28 homolog B	127	CCHC-type 1.				miRNA catabolic process|pre-microRNA processing|regulation of transcription, DNA-dependent|RNA 3'-end processing	cytoplasm|nucleus	DNA binding|protein binding|RNA binding|zinc ion binding				0		all_cancers(87;0.00346)|Acute lymphoblastic leukemia(125;2.26e-08)|all_hematologic(75;2.79e-06)|all_epithelial(87;0.204)												0.134615	47.179204	80.813192	35	225	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	105474353	105474353	9133	6	G	T	T	T	429	33	LIN28B	2	2
TAAR2	9287	broad.mit.edu	37	6	132939196	132939196	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:132939196A>G	uc003qdl.1	-	c.149T>C	c.(148-150)ATG>ACG	p.M50T	TAAR2_uc010kfr.1_Missense_Mutation_p.M5T	NM_001033080	NP_001028252	Q9P1P5	TAAR2_HUMAN	trace amine associated receptor 2 isoform 1	50	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00608)|GBM - Glioblastoma multiforme(226;0.0151)										0.130435	16.256959	34.609759	18	120	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	132939196	132939196	16011	6	A	G	G	G	104	8	TAAR2	4	4
HMGN4	10473	broad.mit.edu	37	6	26545565	26545565	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:26545565C>T	uc003nig.2	+	c.131C>T	c.(130-132)GCC>GTC	p.A44V		NM_006353	NP_006344	O00479	HMGN4_HUMAN	high mobility group nucleosomal binding domain	44						chromatin|nucleus	DNA binding				0														0.298387	93.267658	97.751123	37	87	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	26545565	26545565	7528	6	C	T	T	T	338	26	HMGN4	2	2
TRIM10	10107	broad.mit.edu	37	6	30128213	30128213	+	Silent	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:30128213G>A	uc003npo.3	-	c.423C>T	c.(421-423)CCC>CCT	p.P141P	TRIM10_uc003npn.2_Silent_p.P141P|TRIM15_uc010jrx.2_5'Flank	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	141						cytoplasm	zinc ion binding				0														0.075472	-0.229469	9.553052	4	49	KEEP	---	---	---	---	capture		Silent	SNP	30128213	30128213	17030	6	G	A	A	A	444	35	TRIM10	2	2
SFRS3	6428	broad.mit.edu	37	6	36564705	36564705	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:36564705C>T	uc003omj.2	+	c.166C>T	c.(166-168)CCC>TCC	p.P56S	SFRS3_uc003omk.2_Non-coding_Transcript|SFRS3_uc011dtp.1_Missense_Mutation_p.P56S	NM_003017	NP_003008	P84103	SRSF3_HUMAN	splicing factor, arginine/serine-rich 3	56	RRM.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0														0.068966	-6.91165	9.912027	6	81	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	36564705	36564705	14668	6	C	T	T	T	390	30	SFRS3	2	2
DNAH8	1769	broad.mit.edu	37	6	38816444	38816444	+	Missense_Mutation	SNP	A	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:38816444A>C	uc003ooe.1	+	c.4415A>C	c.(4414-4416)AAA>ACA	p.K1472T		NM_001371	NP_001362	Q96JB1	DYH8_HUMAN	dynein, axonemal, heavy polypeptide 8	1472					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(5)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	17										2979				0.361111	80.533201	81.754464	26	46	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	38816444	38816444	4790	6	A	C	C	C	13	1	DNAH8	4	4
COL19A1	1310	broad.mit.edu	37	6	70637878	70637878	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:70637878A>T	uc003pfc.1	+	c.344A>T	c.(343-345)GAA>GTA	p.E115V	COL19A1_uc010kam.1_Missense_Mutation_p.E11V	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	115	TSP N-terminal.			FRVRRNAKKERWFL -> ETTVPFWRFFVLET (in Ref. 6; AAA36358).	cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4														0.183544	54.607357	69.441687	29	129	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	70637878	70637878	3814	6	A	T	T	T	117	9	COL19A1	3	3
KLHL32	114792	broad.mit.edu	37	6	97587157	97587157	+	Nonstop_Mutation	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:97587157G>C	uc010kcm.1	+	c.1862G>C	c.(1861-1863)TGA>TCA	p.*621S	KLHL32_uc011ead.1_Nonstop_Mutation_p.*585S|KLHL32_uc003poz.2_Nonstop_Mutation_p.*177S|KLHL32_uc011eae.1_Nonstop_Mutation_p.*552S|KLHL32_uc003ppa.2_Non-coding_Transcript	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	621										ovary(3)	3		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)										0.13986	31.037689	48.930692	20	123	KEEP	---	---	---	---	capture		Nonstop_Mutation	SNP	97587157	97587157	8699	6	G	C	C	C	581	45	KLHL32	5	3
MET	4233	broad.mit.edu	37	7	116412043	116412043	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:116412043G>C	uc010lkh.2	+	c.3082G>C	c.(3082-3084)GAT>CAT	p.D1028H	MET_uc003vij.2_Missense_Mutation_p.D1010H|MET_uc011knj.1_Missense_Mutation_p.D580H	NM_001127500	NP_001120972	P08581	MET_HUMAN	met proto-oncogene isoform a precursor	1010	Cytoplasmic (Potential).	Breakpoint for translocation to form TPR- MET oncogene.			axon guidance|cell proliferation|protein phosphorylation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding	p.T1010I(3)|p.L982_D1028del(3)|p.D981_D1028del(1)|p.982_1028del47(1)|p.?(1)		upper_aerodigestive_tract(63)|lung(41)|kidney(18)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|NS(3)|large_intestine(2)|testis(1)|breast(1)	148	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)							299				0.458824	109.810866	109.936597	39	46	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	116412043	116412043	9874	7	G	C	C	C	455	35	MET	3	3
FLNC	2318	broad.mit.edu	37	7	128481584	128481584	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:128481584G>A	uc003vnz.3	+	c.2084G>A	c.(2083-2085)CGT>CAT	p.R695H	FLNC_uc003voa.3_Missense_Mutation_p.R695H	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	695	Filamin 5.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)	10										892				0.47191	120.029208	120.091111	42	47	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	128481584	128481584	6177	7	G	A	A	A	520	40	FLNC	1	1
FKBP9	11328	broad.mit.edu	37	7	33014332	33014332	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:33014332G>T	uc011kal.1	+	c.484G>T	c.(484-486)GTG>TTG	p.V162L	AVL9_uc011kai.1_Intron|FKBP9_uc011kak.1_Intron|FKBP9_uc003tdh.2_Missense_Mutation_p.V109L|FKBP9_uc003tdg.2_Missense_Mutation_p.V109L|FKBP9_uc010kwm.2_Missense_Mutation_p.V16L	NM_007270	NP_009201	O95302	FKBP9_HUMAN	FK506 binding protein 9 precursor	109	PPIase FKBP-type 1.				protein folding	endoplasmic reticulum|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			central_nervous_system(13)|ovary(1)	14			GBM - Glioblastoma multiforme(11;0.0156)											0.120968	39.803615	74.704954	30	218	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	33014332	33014332	6153	7	G	T	T	T	520	40	FKBP9	1	1
NPSR1	387129	broad.mit.edu	37	7	34698106	34698106	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:34698106G>A	uc003teh.1	+	c.82G>A	c.(82-84)GAA>AAA	p.E28K	AAA1_uc010kwo.1_Intron|AAA1_uc010kwp.1_Intron|AAA1_uc003tdz.2_Intron|AAA1_uc010kwq.1_Intron|AAA1_uc003teb.1_Intron|AAA1_uc011kaq.1_Intron|NPSR1_uc003teg.1_Missense_Mutation_p.E28K|NPSR1_uc010kwt.1_5'UTR|NPSR1_uc010kwu.1_5'UTR|NPSR1_uc010kwv.1_Missense_Mutation_p.E28K|NPSR1_uc003tei.1_Missense_Mutation_p.E28K|NPSR1_uc010kww.1_Missense_Mutation_p.E28K|NPSR1_uc011kar.1_Missense_Mutation_p.E28K	NM_207173	NP_997056	Q6W5P4	NPSR1_HUMAN	G protein-coupled receptor for asthma	28	Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			pancreas(1)|skin(1)	2					Halothane(DB01159)									0.219626	95.25972	110.741093	47	167	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	34698106	34698106	11005	7	G	A	A	A	585	45	NPSR1	2	2
STX1A	6804	broad.mit.edu	37	7	73114762	73114762	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:73114762G>C	uc003tyx.2	-	c.842C>G	c.(841-843)TCC>TGC	p.S281C	WBSCR22_uc003tyw.1_Intron|STX1A_uc003tyy.2_3'UTR	NM_004603	NP_004594	Q16623	STX1A_HUMAN	syntaxin 1A isoform 1	281	Helical; Anchor for type IV membrane protein; (Potential).				energy reserve metabolic process|glutamate secretion|intracellular protein transport|regulation of insulin secretion	cell junction|extracellular region|integral to membrane|neuron projection|synaptic vesicle membrane|synaptosome	SNAP receptor activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)												0.15	22.859294	32.244741	12	68	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	73114762	73114762	15863	7	G	C	C	C	533	41	STX1A	3	3
CSMD3	114788	broad.mit.edu	37	8	113243835	113243835	+	Silent	SNP	A	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:113243835A>C	uc003ynu.2	-	c.10767T>G	c.(10765-10767)ACT>ACG	p.T3589T	CSMD3_uc003yns.2_Silent_p.T2791T|CSMD3_uc003ynt.2_Silent_p.T3549T|CSMD3_uc011lhx.1_Silent_p.T3420T	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3589	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(20)|lung(11)|kidney(8)|large_intestine(6)|skin(3)|central_nervous_system(2)|urinary_tract(1)|breast(1)	52										2888	TCGA Ovarian(7;0.080)			0.096491	18.633115	93.437204	44	412	KEEP	---	---	---	---	capture		Silent	SNP	113243835	113243835	4087	8	A	C	C	C	28	3	CSMD3	4	4
ENPP2	5168	broad.mit.edu	37	8	120602788	120602788	+	Silent	SNP	T	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:120602788T>C	uc003yos.1	-	c.1320A>G	c.(1318-1320)GGA>GGG	p.G440G	ENPP2_uc003yor.1_Silent_p.G27G|ENPP2_uc003yot.1_Silent_p.G388G|ENPP2_uc010mdd.1_Silent_p.G388G	NM_006209	NP_006200	Q13822	ENPP2_HUMAN	autotaxin isoform 1 preproprotein	388					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|kidney(1)	6	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			Melanoma(20;305 879 2501 4818 31020)								0.05	-12.039213	13.722497	6	114	KEEP	---	---	---	---	capture		Silent	SNP	120602788	120602788	5323	8	T	C	C	C	795	62	ENPP2	4	4
ZNF572	137209	broad.mit.edu	37	8	125989598	125989598	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:125989598A>G	uc003yrr.2	+	c.1088A>G	c.(1087-1089)GAA>GGA	p.E363G		NM_152412	NP_689625	Q7Z3I7	ZN572_HUMAN	zinc finger protein 572	363					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)											0.212121	103.713175	118.923312	42	156	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	125989598	125989598	18599	8	A	G	G	G	117	9	ZNF572	4	4
ASAP1	50807	broad.mit.edu	37	8	131104252	131104252	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:131104252G>A	uc003yta.1	-	c.2539C>T	c.(2539-2541)CAT>TAT	p.H847Y	ASAP1_uc003ysz.1_Missense_Mutation_p.H658Y|ASAP1_uc011liw.1_Missense_Mutation_p.H840Y	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	847	Pro-rich.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4														0.108571	49.294208	129.016506	57	468	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	131104252	131104252	1028	8	G	A	A	A	585	45	ASAP1	2	2
COL22A1	169044	broad.mit.edu	37	8	139606336	139606336	+	Silent	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:139606336C>A	uc003yvd.2	-	c.4539G>T	c.(4537-4539)CGG>CGT	p.R1513R	COL22A1_uc011ljo.1_Silent_p.R793R	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1513	Pro-rich.|Gly-rich.|Collagen-like 15.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(10)|pancreas(1)	11	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)											0.085714	-0.69699	11.487246	6	64	KEEP	---	---	---	---	capture		Silent	SNP	139606336	139606336	3819	8	C	A	A	A	275	22	COL22A1	2	2
PTK2	5747	broad.mit.edu	37	8	141856744	141856744	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:141856744G>C	uc003yvt.2	-	c.550C>G	c.(550-552)CAA>GAA	p.Q184E	PTK2_uc003yvq.2_5'Flank|PTK2_uc003yvr.2_Missense_Mutation_p.Q61E|PTK2_uc003yvs.2_Missense_Mutation_p.Q162E|PTK2_uc003yvu.2_Missense_Mutation_p.Q162E|PTK2_uc003yvv.2_Missense_Mutation_p.Q49E|PTK2_uc011ljr.1_Missense_Mutation_p.Q162E	NM_005607	NP_005598	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform b	162	FERM.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)							917				0.103286	22.940035	56.279013	22	191	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	141856744	141856744	13217	8	G	C	C	C	585	45	PTK2	3	3
CYP11B2	1585	broad.mit.edu	37	8	143998597	143998597	+	Silent	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:143998597C>A	uc003yxk.1	-	c.273G>T	c.(271-273)GTG>GTT	p.V91V		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	91					aldosterone biosynthetic process|oxidation-reduction process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|renal water homeostasis|sodium ion homeostasis|xenobiotic metabolic process	mitochondrial inner membrane	corticosterone 18-monooxygenase activity|electron carrier activity|heme binding|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Candesartan(DB00796)|Metyrapone(DB01011)									0.096774	4.132883	24.329522	12	112	KEEP	---	---	---	---	capture		Silent	SNP	143998597	143998597	4311	8	C	A	A	A	366	29	CYP11B2	2	2
SORBS3	10174	broad.mit.edu	37	8	22428698	22428698	+	Silent	SNP	C	T	T	rs111727569		TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:22428698C>T	uc003xbv.2	+	c.1707C>T	c.(1705-1707)TTC>TTT	p.F569F	SORBS3_uc003xbw.3_Silent_p.F227F	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	569					muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)										0.388889	20.624145	20.81766	7	11	KEEP	---	---	---	---	capture		Silent	SNP	22428698	22428698	15429	8	C	T	T	T	415	32	SORBS3	2	2
TEX15	56154	broad.mit.edu	37	8	30705531	30705531	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:30705531C>G	uc003xil.2	-	c.1003G>C	c.(1003-1005)GAG>CAG	p.E335Q		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	335										ovary(3)	3				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)										0.178571	11.678879	14.385093	5	23	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	30705531	30705531	16306	8	C	G	G	G	377	29	TEX15	3	3
LSM1	27257	broad.mit.edu	37	8	38027379	38027379	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:38027379C>G	uc003xkw.2	-	c.172G>C	c.(172-174)GAT>CAT	p.D58H	LSM1_uc003xkx.2_Non-coding_Transcript	NM_014462	NP_055277	O15116	LSM1_HUMAN	Lsm1 protein	58					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|mRNA processing|RNA splicing, via transesterification reactions	cytosol|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0	Colorectal(12;0.000442)													0.172414	11.656752	14.596613	5	24	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	38027379	38027379	9426	8	C	G	G	G	377	29	LSM1	3	3
VCPIP1	80124	broad.mit.edu	37	8	67577170	67577170	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:67577170C>G	uc003xwn.2	-	c.2024G>C	c.(2023-2025)AGA>ACA	p.R675T	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	675					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			NSCLC(179;265 2915 6144 43644)				91				0.105072	31.3544	74.081517	29	247	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	67577170	67577170	17706	8	C	G	G	G	416	32	VCPIP1	3	3
ZFHX4	79776	broad.mit.edu	37	8	77775484	77775484	+	Silent	SNP	A	G	G			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:77775484A>G	uc003yav.2	+	c.9399A>G	c.(9397-9399)TCA>TCG	p.S3133S		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3129					regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)											0.075	-4.620265	17.627268	9	111	KEEP	---	---	---	---	capture		Silent	SNP	77775484	77775484	18223	8	A	G	G	G	80	7	ZFHX4	4	4
CNBD1	168975	broad.mit.edu	37	8	88218362	88218362	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:88218362C>A	uc003ydy.2	+	c.573C>A	c.(571-573)AGC>AGA	p.S191R		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	191										ovary(3)	3														0.074713	-5.073617	27.300021	13	161	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	88218362	88218362	3729	8	C	A	A	A	324	25	CNBD1	2	2
IKBKAP	8518	broad.mit.edu	37	9	111665947	111665947	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:111665947G>A	uc004bdm.3	-	c.1646C>T	c.(1645-1647)TCA>TTA	p.S549L	IKBKAP_uc004bdl.2_Missense_Mutation_p.S200L|IKBKAP_uc011lwc.1_Missense_Mutation_p.S435L|IKBKAP_uc010mtq.2_Missense_Mutation_p.S200L	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	549					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)|breast(1)|kidney(1)	6														0.164634	51.817387	69.331601	27	137	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	111665947	111665947	7911	9	G	A	A	A	585	45	IKBKAP	2	2
DENND1A	57706	broad.mit.edu	37	9	126531831	126531831	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:126531831C>A	uc011lzm.1	-	c.48G>T	c.(46-48)CAG>CAT	p.Q16H	DENND1A_uc004bny.1_5'UTR|DENND1A_uc004bnz.1_Missense_Mutation_p.Q48H|DENND1A_uc004boa.1_Missense_Mutation_p.Q48H|DENND1A_uc004bob.1_Missense_Mutation_p.Q18H|DENND1A_uc004boc.2_Intron	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	48	UDENN.					cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2														0.151261	57.333145	85.075756	36	202	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	126531831	126531831	4605	9	C	A	A	A	415	32	DENND1A	2	2
UBAC1	10422	broad.mit.edu	37	9	138830180	138830180	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:138830180C>A	uc004cgt.2	-	c.990G>T	c.(988-990)AAG>AAT	p.K330N	UBAC1_uc004cgs.1_Missense_Mutation_p.K330N|UBAC1_uc004cgu.2_Non-coding_Transcript	NM_016172	NP_057256	Q9BSL1	UBAC1_HUMAN	ubiquitin associated domain containing 1	330						Golgi apparatus|plasma membrane	protein binding				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.1e-06)|Epithelial(140;7.79e-06)		NSCLC(78;973 1398 27381 29552 42415)								0.294118	8.434919	9.103511	5	12	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	138830180	138830180	17391	9	C	A	A	A	363	28	UBAC1	2	2
DENND4C	55667	broad.mit.edu	37	9	19350853	19350853	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:19350853G>A	uc003znq.2	+	c.3616G>A	c.(3616-3618)GTA>ATA	p.V1206I	DENND4C_uc011lnc.1_Missense_Mutation_p.V536I|DENND4C_uc011lnd.1_Missense_Mutation_p.V494I|DENND4C_uc003znr.2_Missense_Mutation_p.V494I|DENND4C_uc003zns.2_Missense_Mutation_p.V388I|DENND4C_uc003znt.2_Missense_Mutation_p.V388I	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	1206						integral to membrane				ovary(1)	1														0.153846	45.289922	67.714457	30	165	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	19350853	19350853	4614	9	G	A	A	A	624	48	DENND4C	2	2
DDX26B	203522	broad.mit.edu	37	X	134680353	134680353	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:134680353G>C	uc004eyw.3	+	c.388G>C	c.(388-390)GAT>CAT	p.D130H		NM_182540	NP_872346	Q5JSJ4	DX26B_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	130	VWFA.										0	Acute lymphoblastic leukemia(192;6.56e-05)													0.267606	51.583324	55.056512	19	52	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	134680353	134680353	4524	23	G	C	C	C	429	33	DDX26B	3	3
MXRA5	25878	broad.mit.edu	37	X	3229296	3229296	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:3229296C>A	uc004crg.3	-	c.6948G>T	c.(6946-6948)ATG>ATT	p.M2316I		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2316	Ig-like C2-type 7.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(23;0.00031)|Lung NSC(23;0.000946)												0.180328	22.102682	27.952962	11	50	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	3229296	3229296	10397	23	C	A	A	A	377	29	MXRA5	2	2
RLIM	51132	broad.mit.edu	37	X	73811648	73811648	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:73811648G>A	uc004ebu.2	-	c.1502C>T	c.(1501-1503)TCA>TTA	p.S501L	RLIM_uc004ebw.2_Missense_Mutation_p.S501L	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	501	Ser-rich.|Poly-Ser.				random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding	p.S501L(1)		ovary(2)	2						Esophageal Squamous(169;1899 1923 14997 18818 32118)								0.15625	5.691192	9.428466	5	27	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	73811648	73811648	13867	23	G	A	A	A	585	45	RLIM	2	2
NCOR2	9612	broad.mit.edu	37	12	124907081	124907092	+	In_Frame_Del	DEL	TTCTTGGGATGC	-	-			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:124907081_124907092delTTCTTGGGATGC	uc010tay.1	-	c.1338_1349delGCATCCCAAGAA	c.(1336-1350)CAGCATCCCAAGAAC>CAC	p.446_450QHPKN>H	NCOR2_uc010taz.1_In_Frame_Del_p.446_450QHPKN>H|NCOR2_uc010tba.1_In_Frame_Del_p.446_450QHPKN>H|NCOR2_uc010tbb.1_In_Frame_Del_p.446_450QHPKN>H|NCOR2_uc010tbc.1_In_Frame_Del_p.445_449QHPKN>H|NCOR2_uc001ugj.1_In_Frame_Del_p.446_450QHPKN>H|NCOR2_uc001ugk.1_In_Frame_Del_p.446_450QHPKN>H	NM_006312	NP_006303	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 1	446_450	SANT 1.				cellular lipid metabolic process|negative regulation of gene-specific transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity|transcription repressor activity			ovary(1)|skin(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)										0.31			13	29		---	---	---	---	capture_indel		In_Frame_Del	DEL	124907081	124907092	10635	12	TTCTTGGGATGC	-	-	-	780	60	NCOR2	5	5
P2RY14	9934	broad.mit.edu	37	3	150996153	150996154	+	De_novo_Start_OutOfFrame	INS	-	A	A	rs67069057		TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:150996153_150996154insA	uc003eys.1	-	c.-211_-210insT	c.(-213--208)ACAGTG>ACATGTG		MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_014879	NP_055694			P2Y14 receptor							integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled|UDP-activated nucleotide receptor activity			large_intestine(2)	2			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)											0.77			10	3		---	---	---	---	capture_indel		De_novo_Start_OutOfFrame	INS	150996153	150996154	11764	3	-	A	A	A	248	20	P2RY14	5	5
GABRA2	2555	broad.mit.edu	37	4	46391056	46391057	+	De_novo_Start_InFrame	INS	-	AT	AT	rs75297939;rs112819860	byFrequency;by1000genomes	TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:46391056_46391057insAT	uc003gxc.3	-	c.-333_-332insAT	c.(-335--330)TACGTG>TACATGTG		GABRA2_uc010igc.2_Intron|GABRA2_uc011bzc.1_Intron|GABRA2_uc003gxe.2_Intron|GABRA2_uc010igd.1_Intron	NM_001114175	NP_001107647			gamma-aminobutyric acid A receptor, alpha 2						gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)									0.33			2	4		---	---	---	---	capture_indel		De_novo_Start_InFrame	INS	46391056	46391057	6412	4	-	AT	AT	AT	235	19	GABRA2	5	5
PTCHD1	139411	broad.mit.edu	37	X	23412262	23412263	+	Frame_Shift_Del	DEL	TC	-	-			TCGA-17-Z040-01	TCGA-17-Z040-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:23412262_23412263delTC	uc004dal.3	+	c.2627_2628delTC	c.(2626-2628)ATCfs	p.I876fs		NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	876					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)	5														0.45			50	61		---	---	---	---	capture_indel		Frame_Shift_Del	DEL	23412262	23412263	13186	23	TC	-	-	-	650	50	PTCHD1	5	5
