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
SORCS3	22986	broad.mit.edu	37	10	106937932	106937932	+	Splice_Site_SNP	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:106937932G>T	uc001kyi.1	+	c.2009_splice	c.e14+1	p.T670_splice	SORCS3_uc010qqz.1_Intron	NM_014978	NP_055793			VPS10 domain receptor protein SORCS 3 precursor							integral to membrane	neuropeptide receptor activity			ovary(6)|central_nervous_system(1)	7		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		NSCLC(116;1497 1690 7108 13108 14106)								0.0625	-2.315986	7.259288	3	45	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	106937932	106937932	15432	10	G	T	T	T	520	40	SORCS3	5	1
SHOC2	8036	broad.mit.edu	37	10	112764460	112764460	+	Missense_Mutation	SNP	A	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:112764460A>G	uc001kzl.3	+	c.1069A>G	c.(1069-1071)ATC>GTC	p.I357V	SHOC2_uc009xxx.2_Missense_Mutation_p.I357V|SHOC2_uc010qrg.1_5'UTR|SHOC2_uc001kzn.2_Missense_Mutation_p.I311V	NM_007373	NP_031399	Q9UQ13	SHOC2_HUMAN	soc-2 suppressor of clear homolog	357	LRR 12.				fibroblast growth factor receptor signaling pathway|positive regulation of Ras protein signal transduction|Ras protein signal transduction	nucleus|protein phosphatase type 1 complex	protein phosphatase binding|protein phosphatase regulator activity			ovary(1)	1				Epithelial(162;0.000796)|all cancers(201;0.011)|BRCA - Breast invasive adenocarcinoma(275;0.126)										0.177215	31.503763	39.256225	14	65	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	112764460	112764460	14782	10	A	G	G	G	104	8	SHOC2	4	4
ADRA2A	150	broad.mit.edu	37	10	112838174	112838174	+	Silent	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:112838174C>T	uc001kzo.2	+	c.420C>T	c.(418-420)TGC>TGT	p.C140C		NM_000681	NP_000672	P08913	ADA2A_HUMAN	alpha-2A-adrenergic receptor	125	Helical; Name=3; (By similarity).				actin cytoskeleton organization|activation of MAPK activity by adrenergic receptor signaling pathway|activation of phospholipase C activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cellular component movement|cellular response to hormone stimulus|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|glucose homeostasis|inhibition of adenylate cyclase activity by adrenergic receptor signaling pathway|intestinal absorption|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of calcium ion-dependent exocytosis|negative regulation of cAMP biosynthetic process|negative regulation of epinephrine secretion|negative regulation of insulin secretion involved in cellular response to glucose stimulus|negative regulation of lipid catabolic process|negative regulation of norepinephrine secretion|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cytokine production|positive regulation of membrane protein ectodomain proteolysis|positive regulation of potassium ion transport|positive regulation of wound healing|Rho protein signal transduction	basolateral plasma membrane|cytoplasm|integral to plasma membrane|receptor complex	alpha-1B adrenergic receptor binding|alpha-2C adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|heterotrimeric G-protein binding|norepinephrine binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|thioesterase binding				0		Breast(234;0.0735)|Lung NSC(174;0.238)		Epithelial(162;0.000316)|all cancers(201;0.00501)|BRCA - Breast invasive adenocarcinoma(275;0.118)	Amitriptyline(DB00321)|Amphetamine(DB00182)|Apraclonidine(DB00964)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Brimonidine(DB00484)|Clonidine(DB00575)|Debrisoquin(DB04840)|Dexmedetomidine(DB00633)|Dipivefrin(DB00449)|Epinastine(DB00751)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanabenz(DB00629)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Lofexidine(DB04948)|Methyldopa(DB00968)|Mianserin(DB06148)|Mirtazapine(DB00370)|Norepinephrine(DB00368)|Oxymetazoline(DB00935)|Phentolamine(DB00692)|Phenylpropanolamine(DB00397)|Pseudoephedrine(DB00852)|Tizanidine(DB00697)|Trazodone(DB00656)|Yohimbine(DB01392)	Esophageal Squamous(173;605 2658 7278 49362)								0.085714	0.638868	6.691394	3	32	KEEP	---	---	---	---	capture		Silent	SNP	112838174	112838174	338	10	C	T	T	T	350	27	ADRA2A	1	1
AFAP1L2	84632	broad.mit.edu	37	10	116060424	116060424	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:116060424G>A	uc010qse.1	-	c.1727C>T	c.(1726-1728)CCT>CTT	p.P576L	AFAP1L2_uc001lbn.2_Missense_Mutation_p.P523L|AFAP1L2_uc001lbo.2_Missense_Mutation_p.P523L|AFAP1L2_uc001lbp.2_Missense_Mutation_p.P551L|AFAP1L2_uc001lbr.1_Missense_Mutation_p.P523L|AFAP1L2_uc001lbm.2_Intron|AFAP1L2_uc010qsd.1_Missense_Mutation_p.P89L|AFAP1L2_uc001lbq.1_Missense_Mutation_p.P45L	NM_001001936	NP_001001936	Q8N4X5	AF1L2_HUMAN	KIAA1914 protein isoform 1	523					inflammatory response|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of transcription, DNA-dependent|regulation of interleukin-6 production|regulation of mitotic cell cycle	cytoplasm	protein tyrosine kinase activator activity|SH2 domain binding|SH3 domain binding			ovary(1)|breast(1)	2		Colorectal(252;0.175)|Breast(234;0.231)		Epithelial(162;0.0219)|all cancers(201;0.0561)										0.1	8.049403	20.826241	8	72	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	116060424	116060424	356	10	G	A	A	A	455	35	AFAP1L2	2	2
DMBT1	1755	broad.mit.edu	37	10	124358327	124358327	+	Silent	SNP	A	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:124358327A>C	uc001lgk.1	+	c.2994A>C	c.(2992-2994)GGA>GGC	p.G998G	DMBT1_uc001lgl.1_Silent_p.G988G|DMBT1_uc001lgm.1_Silent_p.G499G|DMBT1_uc009xzz.1_Silent_p.G998G|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yab.1_5'UTR	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	998	SRCR 8.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				Ovarian(182;93 2026 18125 22222 38972)								0.105611	25.66931	72.544839	32	271	KEEP	---	---	---	---	capture		Silent	SNP	124358327	124358327	4757	10	A	C	C	C	132	11	DMBT1	4	4
ZWINT	11130	broad.mit.edu	37	10	58118343	58118343	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:58118343C>A	uc001jjx.1	-	c.766G>T	c.(766-768)GGG>TGG	p.G256W	ZWINT_uc001jjy.1_Missense_Mutation_p.G209W|ZWINT_uc001jka.1_Missense_Mutation_p.G256W|ZWINT_uc009xoy.1_Non-coding_Transcript	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a	256					cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0														0.232	67.030555	75.240333	29	96	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	58118343	58118343	18854	10	C	A	A	A	286	22	ZWINT	2	2
SEC24C	9632	broad.mit.edu	37	10	75525618	75525618	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:75525618G>T	uc001juw.2	+	c.1427G>T	c.(1426-1428)CGC>CTC	p.R476L	SEC24C_uc010qkn.1_Intron|SEC24C_uc009xrj.1_Missense_Mutation_p.R334L|SEC24C_uc001jux.2_Missense_Mutation_p.R476L|SEC24C_uc010qko.1_Missense_Mutation_p.R357L|SEC24C_uc010qkp.1_Intron|SEC24C_uc010qkq.1_Intron	NM_004922	NP_004913	P53992	SC24C_HUMAN	SEC24-related protein C	476					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			central_nervous_system(1)	1	Prostate(51;0.0112)													0.091892	8.160506	39.167878	17	168	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	75525618	75525618	14482	10	G	T	T	T	494	38	SEC24C	1	1
OPALIN	93377	broad.mit.edu	37	10	98105750	98105750	+	Missense_Mutation	SNP	A	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:98105750A>G	uc001kmj.2	-	c.374T>C	c.(373-375)ATG>ACG	p.M125T	OPALIN_uc010qor.1_Missense_Mutation_p.M115T|OPALIN_uc001kmi.2_Missense_Mutation_p.M115T|OPALIN_uc001kmk.2_Missense_Mutation_p.M102T|OPALIN_uc010qos.1_Non-coding_Transcript	NM_033207	NP_149984	Q96PE5	OPALI_HUMAN	transmembrane protein 10 isoform a	125						Golgi apparatus|integral to membrane|plasma membrane					0														0.267606	100.687429	107.611545	38	104	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	98105750	98105750	11279	10	A	G	G	G	104	8	OPALIN	4	4
DYNC2H1	79659	broad.mit.edu	37	11	103006491	103006491	+	Silent	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:103006491G>T	uc001phn.1	+	c.2388G>T	c.(2386-2388)CGG>CGT	p.R796R	DYNC2H1_uc001pho.2_Silent_p.R796R|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	796	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)										0.236842	21.360126	23.762701	9	29	KEEP	---	---	---	---	capture		Silent	SNP	103006491	103006491	5032	11	G	T	T	T	548	43	DYNC2H1	2	2
NCAM1	4684	broad.mit.edu	37	11	113076778	113076778	+	Silent	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:113076778C>A	uc009yyq.1	+	c.150C>A	c.(148-150)GTC>GTA	p.V50V	NCAM1_uc001pno.2_Silent_p.V50V	NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	168	Ig-like C2-type 2.|Extracellular (Potential).				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)						700				0.328571	60.701354	62.525171	23	47	KEEP	---	---	---	---	capture		Silent	SNP	113076778	113076778	10601	11	C	A	A	A	379	30	NCAM1	2	2
APOA5	116519	broad.mit.edu	37	11	116660968	116660968	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:116660968G>T	uc001ppr.2	-	c.977C>A	c.(976-978)CCA>CAA	p.P326Q	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Missense_Mutation_p.P326Q|APOA5_uc009yzf.2_Missense_Mutation_p.P326Q|APOA5_uc009yzg.2_Missense_Mutation_p.P352Q	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	326					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)										0.348837	40.506171	41.375838	15	28	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	116660968	116660968	795	11	G	T	T	T	611	47	APOA5	2	2
PVRL1	5818	broad.mit.edu	37	11	119509492	119509492	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:119509492C>A	uc001pwu.1	-	c.1176G>T	c.(1174-1176)AAG>AAT	p.K392N		NM_203285	NP_976030	Q15223	PVRL1_HUMAN	poliovirus receptor-related 1 isoform 2	Error:Variant_position_missing_in_Q15223_after_alignment					adherens junction organization|cell junction assembly|entry of virus into host cell|heterophilic cell-cell adhesion|homophilic cell adhesion|immune response	cell-cell adherens junction|extracellular region|integral to membrane	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0		Breast(348;0.037)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.29e-05)										0.227273	11.197937	12.67603	5	17	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	119509492	119509492	13297	11	C	A	A	A	363	28	PVRL1	2	2
OR5M3	219482	broad.mit.edu	37	11	56237132	56237132	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:56237132G>T	uc010rjk.1	-	c.842C>A	c.(841-843)CCC>CAC	p.P281H		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	281	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)													0.219512	19.851864	22.824196	9	32	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	56237132	56237132	11585	11	G	T	T	T	559	43	OR5M3	2	2
NRXN2	9379	broad.mit.edu	37	11	64375348	64375348	+	Nonsense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:64375348C>A	uc001oar.2	-	c.4459G>T	c.(4459-4461)GAG>TAG	p.E1487*	NRXN2_uc001oas.2_Nonsense_Mutation_p.E1417*|NRXN2_uc001oao.2_Nonsense_Mutation_p.E127*|NRXN2_uc001oap.2_Nonsense_Mutation_p.E441*|NRXN2_uc001oaq.2_Nonsense_Mutation_p.E1154*	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	441	Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)|pancreas(1)|kidney(1)|central_nervous_system(1)|skin(1)	6														0.5	14.473882	14.473882	5	5	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	64375348	64375348	11071	11	C	A	A	A	403	31	NRXN2	5	1
OR2AG1	144125	broad.mit.edu	37	11	6806454	6806454	+	Silent	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:6806454G>T	uc001mer.1	+	c.186G>T	c.(184-186)CTG>CTT	p.L62L		NM_001004489	NP_001004489	Q9H205	O2AG1_HUMAN	olfactory receptor, family 2, subfamily AG,	62	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.19e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)										0.170886	52.623129	68.811822	27	131	KEEP	---	---	---	---	capture		Silent	SNP	6806454	6806454	11390	11	G	T	T	T	587	46	OR2AG1	2	2
NLRP14	338323	broad.mit.edu	37	11	7063760	7063760	+	Missense_Mutation	SNP	T	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:7063760T>A	uc001mfb.1	+	c.503T>A	c.(502-504)GTG>GAG	p.V168E		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	168					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|lung(1)|pancreas(1)	7				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)										0.17757	42.063083	52.53604	19	88	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	7063760	7063760	10879	11	T	A	A	A	767	59	NLRP14	3	3
ODZ4	26011	broad.mit.edu	37	11	78412983	78412983	+	Nonsense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:78412983G>A	uc001ozl.3	-	c.4675C>T	c.(4675-4677)CGA>TGA	p.R1559*	ODZ4_uc009yvb.1_Nonsense_Mutation_p.R143*	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1559	NHL 5.|Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4														0.042105	-12.509658	8.813285	4	91	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	78412983	78412983	11242	11	G	A	A	A	506	39	ODZ4	5	1
FAT3	120114	broad.mit.edu	37	11	92086791	92086791	+	Missense_Mutation	SNP	G	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:92086791G>C	uc001pdj.3	+	c.1513G>C	c.(1513-1515)GGG>CGG	p.G505R		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	505	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)									TCGA Ovarian(4;0.039)			0.3125	45.304983	46.808649	15	33	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	92086791	92086791	5927	11	G	C	C	C	611	47	FAT3	3	3
GRIN2B	2904	broad.mit.edu	37	12	13768186	13768186	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:13768186C>A	uc001rbt.2	-	c.1516G>T	c.(1516-1518)GCC>TCC	p.A506S		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	506	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|lung(2)|skin(1)	10					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)					371				0.142857	9.888805	15.915519	7	42	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	13768186	13768186	7059	12	C	A	A	A	338	26	GRIN2B	2	2
ATF7IP	55729	broad.mit.edu	37	12	14578064	14578064	+	Silent	SNP	T	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:14578064T>C	uc001rbw.2	+	c.1215T>C	c.(1213-1215)GAT>GAC	p.D405D	ATF7IP_uc010shs.1_Silent_p.D405D|ATF7IP_uc001rbu.2_Silent_p.D405D|ATF7IP_uc001rbv.1_Silent_p.D405D|ATF7IP_uc001rbx.2_Silent_p.D405D|ATF7IP_uc010sht.1_Silent_p.D405D|ATF7IP_uc001rby.3_Silent_p.D405D|ATF7IP_uc001rbz.1_Silent_p.D405D|ATF7IP_uc001rca.2_Silent_p.D405D|ATF7IP_uc001rcb.2_Silent_p.D16D	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	405	Glu-rich.				DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5														0.05	-7.064408	10.113477	4	76	KEEP	---	---	---	---	capture		Silent	SNP	14578064	14578064	1106	12	T	C	C	C	647	50	ATF7IP	4	4
OVCH1	341350	broad.mit.edu	37	12	29614910	29614910	+	Silent	SNP	A	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:29614910A>T	uc001rix.1	-	c.2157T>A	c.(2155-2157)ATT>ATA	p.I719I		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	719	Peptidase S1 2.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)													0.075949	-3.424295	25.694749	12	146	KEEP	---	---	---	---	capture		Silent	SNP	29614910	29614910	11736	12	A	T	T	T	112	9	OVCH1	3	3
NECAP1	25977	broad.mit.edu	37	12	8244385	8244385	+	Missense_Mutation	SNP	A	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:8244385A>G	uc001qtx.2	+	c.322A>G	c.(322-324)ATT>GTT	p.I108V	NECAP1_uc001qty.2_Intron	NM_015509	NP_056324	Q8NC96	NECP1_HUMAN	NECAP endocytosis associated 1	108					endocytosis|protein transport	clathrin coated vesicle membrane|plasma membrane				ovary(1)	1				Kidney(36;0.0915)										0.078947	0.795041	7.674673	3	35	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	8244385	8244385	10706	12	A	G	G	G	104	8	NECAP1	4	4
CDK17	5128	broad.mit.edu	37	12	96694092	96694092	+	Missense_Mutation	SNP	T	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:96694092T>C	uc001tep.1	-	c.590A>G	c.(589-591)AAG>AGG	p.K197R	CDK17_uc009ztk.2_Missense_Mutation_p.K197R|CDK17_uc010svb.1_Missense_Mutation_p.K144R	NM_002595	NP_002586	Q00537	CDK17_HUMAN	PCTAIRE protein kinase 2	197	Protein kinase.				protein phosphorylation		ATP binding|cyclin-dependent protein kinase activity			ovary(3)|lung(2)|kidney(1)|central_nervous_system(1)	7										253				0.036585	-12.348808	6.747618	3	79	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	96694092	96694092	3262	12	T	C	C	C	728	56	CDK17	4	4
MPHOSPH8	54737	broad.mit.edu	37	13	20240685	20240685	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:20240685C>T	uc001umg.2	+	c.2140C>T	c.(2140-2142)CTT>TTT	p.L714F	MPHOSPH8_uc001umh.2_Missense_Mutation_p.L714F	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	714	ANK 4.				cell cycle|chromatin assembly or disassembly	chromatin|cytoplasm|nucleus	chromatin binding				0		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)										0.035294	-13.254568	6.697439	3	82	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	20240685	20240685	10119	13	C	T	T	T	364	28	MPHOSPH8	2	2
ZMYM5	9205	broad.mit.edu	37	13	20425887	20425888	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:20425887_20425888CC>AA	uc010tcn.1	-	c.433_434GG>TT	c.(433-435)GGA>TTA	p.G145L	ZMYM5_uc001umm.1_5'UTR|ZMYM5_uc001umn.2_Missense_Mutation_p.G145L|ZMYM5_uc001umo.2_Missense_Mutation_p.G145L	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	145						nucleus	zinc ion binding				0		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)										0.064	-8.390316	16.317061	8	117	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	20425887	20425888	18294	13	CC	AA	AA	AA	390	30	ZMYM5	2	2
XPO4	64328	broad.mit.edu	37	13	21373447	21373447	+	Missense_Mutation	SNP	A	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:21373447A>T	uc001unq.3	-	c.2179T>A	c.(2179-2181)TGG>AGG	p.W727R		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	727					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)						353				0.078947	0.102138	13.852038	6	70	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	21373447	21373447	18029	13	A	T	T	T	78	6	XPO4	3	3
MTMR6	9107	broad.mit.edu	37	13	25848295	25848295	+	Missense_Mutation	SNP	T	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:25848295T>C	uc001uqf.3	-	c.55A>G	c.(55-57)AGT>GGT	p.S19G	MTMR6_uc001uqe.1_Missense_Mutation_p.S19G	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	19						cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)										0.087719	2.132851	11.931676	5	52	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	25848295	25848295	10340	13	T	C	C	C	715	55	MTMR6	4	4
PAN3	255967	broad.mit.edu	37	13	28854560	28854560	+	Missense_Mutation	SNP	C	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:28854560C>G	uc001urz.2	+	c.1763C>G	c.(1762-1764)ACT>AGT	p.T588S	PAN3_uc001ury.2_Missense_Mutation_p.T422S|PAN3_uc001urx.2_Missense_Mutation_p.T534S	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	588	Protein kinase.|Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|protein phosphorylation	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)										0.034091	-12.856994	7.949893	3	85	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	28854560	28854560	11832	13	C	G	G	G	260	20	PAN3	3	3
FLT1	2321	broad.mit.edu	37	13	29041231	29041231	+	Missense_Mutation	SNP	A	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:29041231A>G	uc001usb.3	-	c.197T>C	c.(196-198)ATG>ACG	p.M66T	FLT1_uc010aar.1_Missense_Mutation_p.M66T|FLT1_uc001usc.3_Missense_Mutation_p.M66T|FLT1_uc010tdp.1_Missense_Mutation_p.M66T|FLT1_uc001usd.2_Missense_Mutation_p.M66T	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	66	Ig-like C2-type 1.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(6)|central_nervous_system(5)|ovary(2)|urinary_tract(1)|breast(1)	15	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)					738				0.15748	44.825973	59.029843	20	107	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	29041231	29041231	6183	13	A	G	G	G	104	8	FLT1	4	4
FRY	10129	broad.mit.edu	37	13	32653165	32653165	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:32653165C>T	uc001utx.2	+	c.265C>T	c.(265-267)CCC>TCC	p.P89S	FRY_uc010tdw.1_Non-coding_Transcript	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	89					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)	6		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)										0.149254	32.407487	48.225865	20	114	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	32653165	32653165	6313	13	C	T	T	T	338	26	FRY	2	2
PCDH8	5100	broad.mit.edu	37	13	53422550	53422550	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:53422550C>A	uc001vhi.2	-	c.22G>T	c.(22-24)GGC>TGC	p.G8C	PCDH8_uc001vhj.2_Missense_Mutation_p.G8C	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	8					cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GBM(36;25 841 9273 49207)								0.072727	-3.84164	6.503415	4	51	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	53422550	53422550	11937	13	C	A	A	A	286	22	PCDH8	2	2
PCDH17	27253	broad.mit.edu	37	13	58207733	58207733	+	Silent	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:58207733C>A	uc001vhq.1	+	c.1053C>A	c.(1051-1053)ATC>ATA	p.I351I	PCDH17_uc010aec.1_Silent_p.I351I	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	351	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(2)|pancreas(2)	4		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		Melanoma(72;952 1291 1619 12849 33676)								0.1	3.97068	10.362735	4	36	KEEP	---	---	---	---	capture		Silent	SNP	58207733	58207733	11932	13	C	A	A	A	395	31	PCDH17	1	1
GPC5	2262	broad.mit.edu	37	13	92560221	92560221	+	Silent	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:92560221C>A	uc010tif.1	+	c.1311C>A	c.(1309-1311)ATC>ATA	p.I437I		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	437						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)	2	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)												0.157143	20.375912	28.229437	11	59	KEEP	---	---	---	---	capture		Silent	SNP	92560221	92560221	6875	13	C	A	A	A	369	29	GPC5	2	2
GPC5	2262	broad.mit.edu	37	13	93518617	93518617	+	Silent	SNP	A	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:93518617A>T	uc010tif.1	+	c.1644A>T	c.(1642-1644)GCA>GCT	p.A548A		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	548						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)	2	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)												0.11828	14.66271	27.972005	11	82	KEEP	---	---	---	---	capture		Silent	SNP	93518617	93518617	6875	13	A	T	T	T	80	7	GPC5	3	3
NPAS3	64067	broad.mit.edu	37	14	34243683	34243683	+	Silent	SNP	T	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:34243683T>C	uc001wru.2	+	c.993T>C	c.(991-993)CAT>CAC	p.H331H	NPAS3_uc001wrs.2_Silent_p.H318H|NPAS3_uc001wrt.2_Silent_p.H299H|NPAS3_uc001wrv.2_Silent_p.H301H	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	331	PAS 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity|transcription regulator activity			ovary(1)	1	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)										0.24	93.795196	101.501082	30	95	KEEP	---	---	---	---	capture		Silent	SNP	34243683	34243683	10968	14	T	C	C	C	634	49	NPAS3	4	4
SOS2	6655	broad.mit.edu	37	14	50600930	50600930	+	Nonsense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:50600930C>A	uc001wxs.3	-	c.2986G>T	c.(2986-2988)GGA>TGA	p.G996*	SOS2_uc010tql.1_Nonsense_Mutation_p.G963*	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	996	Ras-GEF.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)													0.17284	54.406916	70.779453	28	134	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	50600930	50600930	15437	14	C	A	A	A	286	22	SOS2	5	2
FAM181A	90050	broad.mit.edu	37	14	94394801	94394802	+	Missense_Mutation	DNP	GG	TT	TT			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:94394801_94394802GG>TT	uc001ybz.1	+	c.356_357GG>TT	c.(355-357)CGG>CTT	p.R119L	C14orf86_uc001yby.2_5'Flank|FAM181A_uc010aus.1_Missense_Mutation_p.R57L|FAM181A_uc001yca.1_Missense_Mutation_p.R57L	NM_138344	NP_612353	Q8N9Y4	F181A_HUMAN	hypothetical protein LOC90050	119											0														0.266667	20.084979	21.562291	8	22	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	94394801	94394802	5715	14	GG	TT	TT	TT	507	39	FAM181A	1	1
MAGEL2	54551	broad.mit.edu	37	15	23889141	23889141	+	Silent	SNP	T	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:23889141T>C	uc001ywj.3	-	c.1940A>G	c.(1939-1941)TAA>TGA	p.*647*		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)										0.185185	13.286163	15.773753	5	22	KEEP	---	---	---	---	capture		Silent	SNP	23889141	23889141	9572	15	T	C	C	C	790	61	MAGEL2	4	4
C15orf2	23742	broad.mit.edu	37	15	24921430	24921430	+	Missense_Mutation	SNP	A	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:24921430A>T	uc001ywo.2	+	c.416A>T	c.(415-417)AAG>ATG	p.K139M		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	139					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|kidney(1)|central_nervous_system(1)	6		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)						443				0.12766	6.520289	12.872116	6	41	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	24921430	24921430	1834	15	A	T	T	T	39	3	C15orf2	3	3
DMXL2	23312	broad.mit.edu	37	15	51741321	51741321	+	Nonsense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:51741321G>A	uc010ufy.1	-	c.8974C>T	c.(8974-8976)CGA>TGA	p.R2992*	DMXL2_uc002abd.2_Nonsense_Mutation_p.R1083*|DMXL2_uc002abf.2_Nonsense_Mutation_p.R2991*|DMXL2_uc010bfa.2_Nonsense_Mutation_p.R2355*|DMXL2_uc002abc.2_Non-coding_Transcript	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2991						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)	6				all cancers(107;0.00494)										0.234848	73.75513	82.24668	31	101	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	51741321	51741321	4777	15	G	A	A	A	480	37	DMXL2	5	1
AQP9	366	broad.mit.edu	37	15	58467122	58467122	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:58467122C>A	uc002aez.2	+	c.382C>A	c.(382-384)CTT>ATT	p.L128I	ALDH1A2_uc010ugw.1_Intron|AQP9_uc010ugx.1_Missense_Mutation_p.L63I	NM_020980	NP_066190	O43315	AQP9_HUMAN	aquaporin 9	128	Helical; (Potential).				cellular response to cAMP|excretion|immune response|metabolic process|response to mercury ion|response to osmotic stress|water homeostasis	integral to plasma membrane|intracellular membrane-bounded organelle	amine transmembrane transporter activity|carboxylic acid transmembrane transporter activity|glycerol channel activity|porin activity|purine base transmembrane transporter activity|pyrimidine base transmembrane transporter activity|water channel activity			ovary(1)	1				GBM - Glioblastoma multiforme(80;0.16)										0.144737	20.470338	29.703733	11	65	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	58467122	58467122	844	15	C	A	A	A	260	20	AQP9	2	2
FSD2	123722	broad.mit.edu	37	15	83451732	83451732	+	Nonsense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:83451732C>A	uc002bjd.2	-	c.781G>T	c.(781-783)GAG>TAG	p.E261*	FSD2_uc010uol.1_Nonsense_Mutation_p.E261*|FSD2_uc010uom.1_Nonsense_Mutation_p.E261*	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	261	Potential.									central_nervous_system(1)	1														0.018433	-48.891733	7.757278	4	213	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	83451732	83451732	6322	15	C	A	A	A	403	31	FSD2	5	1
ADAMTSL3	57188	broad.mit.edu	37	15	84659933	84659933	+	Nonsense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:84659933G>T	uc002bjz.3	+	c.3940G>T	c.(3940-3942)GGA>TGA	p.G1314*	ADAMTSL3_uc010bmt.1_Nonsense_Mutation_p.G1314*|ADAMTSL3_uc010bmu.1_Nonsense_Mutation_p.G1314*	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	1314	Ig-like C2-type 3.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			central_nervous_system(5)|ovary(5)|large_intestine(4)|lung(1)|breast(1)|kidney(1)|pancreas(1)	18			BRCA - Breast invasive adenocarcinoma(143;0.211)							580				0.193966	92.168188	112.42448	45	187	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	84659933	84659933	277	15	G	T	T	T	611	47	ADAMTSL3	5	2
FURIN	5045	broad.mit.edu	37	15	91423416	91423416	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:91423416G>T	uc002bpu.1	+	c.1469G>T	c.(1468-1470)CGG>CTG	p.R490L		NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	490					cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|positive regulation of membrane protein ectodomain proteolysis|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)	4	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)							290				0.25	11.966775	13.102336	5	15	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	91423416	91423416	6350	15	G	T	T	T	507	39	FURIN	1	1
TPSD1	23430	broad.mit.edu	37	16	1306310	1306310	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:1306310G>T	uc002clb.1	+	c.29G>T	c.(28-30)AGC>ATC	p.S10I	TPSD1_uc010brm.1_5'Flank	NM_012217	NP_036349	Q9BZJ3	TRYD_HUMAN	tryptase delta 1 precursor	10					proteolysis	extracellular region	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)												0.155556	9.892496	15.001366	7	38	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	1306310	1306310	16969	16	G	T	T	T	442	34	TPSD1	2	2
MYH11	4629	broad.mit.edu	37	16	15814806	15814806	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:15814806C>T	uc002ddx.2	-	c.4702G>A	c.(4702-4704)GCC>ACC	p.A1568T	MYH11_uc002ddv.2_Missense_Mutation_p.A1568T|MYH11_uc002ddw.2_Missense_Mutation_p.A1561T|MYH11_uc002ddy.2_Missense_Mutation_p.A1561T|MYH11_uc010bvg.2_Missense_Mutation_p.A1393T|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron|MYH11_uc010bvh.2_Missense_Mutation_p.A267T|NDE1_uc002ddz.1_5'Flank	NM_001040114	NP_001035203	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1561	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(4)|skin(2)|lung(1)	7										1257				0.138298	16.706232	28.608061	13	81	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	15814806	15814806	10426	16	C	T	T	T	351	27	MYH11	1	1
XYLT1	64131	broad.mit.edu	37	16	17211812	17211812	+	Nonsense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:17211812C>A	uc002dfa.2	-	c.2248G>T	c.(2248-2250)GAG>TAG	p.E750*		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	750	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4														0.111111	4.339398	11.071432	5	40	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	17211812	17211812	18046	16	C	A	A	A	390	30	XYLT1	5	2
TSC2	7249	broad.mit.edu	37	16	2127677	2127677	+	Silent	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:2127677C>A	uc002con.2	+	c.2916C>A	c.(2914-2916)GCC>GCA	p.A972A	TSC2_uc010bsd.2_Silent_p.A972A|TSC2_uc002coo.2_Intron|TSC2_uc010uvv.1_Intron|TSC2_uc010uvw.1_Intron|TSC2_uc002cop.2_Intron	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	972					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)								1098				0.042857	-9.329092	6.356848	3	67	KEEP	---	---	---	---	capture		Silent	SNP	2127677	2127677	17157	16	C	A	A	A	288	23	TSC2	1	1
C16orf72	29035	broad.mit.edu	37	16	9197114	9197114	+	Missense_Mutation	SNP	A	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:9197114A>C	uc002czm.2	+	c.581A>C	c.(580-582)CAT>CCT	p.H194P		NM_014117	NP_054836	Q14CZ0	CP072_HUMAN	hypothetical protein LOC29035	194										large_intestine(1)	1														0.257143	30.760256	32.630028	9	26	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	9197114	9197114	1884	16	A	C	C	C	104	8	C16orf72	4	4
EVI2A	2123	broad.mit.edu	37	17	29645432	29645432	+	Missense_Mutation	SNP	T	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:29645432T>G	uc002hgl.2	-	c.669A>C	c.(667-669)AAA>AAC	p.K223N	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2A_uc002hgm.2_Missense_Mutation_p.K200N	NM_001003927	NP_001003927	P22794	EVI2A_HUMAN	ecotropic viral integration site 2A isoform 1	200	Cytoplasmic (Potential).					integral to membrane	transmembrane receptor activity			ovary(1)|breast(1)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;5.94e-13)|Epithelial(4;7.98e-12)|OV - Ovarian serous cystadenocarcinoma(4;9.4e-12)|GBM - Glioblastoma multiforme(4;0.18)										0.12	10.615559	17.696358	6	44	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	29645432	29645432	5480	17	T	G	G	G	777	60	EVI2A	4	4
SLFN13	146857	broad.mit.edu	37	17	33769261	33769261	+	Nonsense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:33769261C>A	uc002hjk.1	-	c.1243G>T	c.(1243-1245)GAG>TAG	p.E415*	SLFN13_uc010wch.1_Nonsense_Mutation_p.E415*|SLFN13_uc002hjl.2_Nonsense_Mutation_p.E415*|SLFN13_uc010ctt.2_Nonsense_Mutation_p.E97*|SLFN13_uc002hjm.2_Nonsense_Mutation_p.E84*	NM_144682	NP_653283	Q68D06	SLN13_HUMAN	schlafen family member 13	415						intracellular	ATP binding			ovary(1)|breast(1)	2				UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)										0.089552	-0.009175	11.407181	6	61	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	33769261	33769261	15233	17	C	A	A	A	390	30	SLFN13	5	2
KRT16	3868	broad.mit.edu	37	17	39768924	39768924	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:39768924C>A	uc002hxg.3	-	c.17G>T	c.(16-18)CGC>CTC	p.R6L	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	6	Head.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000307)												0.333333	11.798741	12.092579	4	8	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	39768924	39768924	8768	17	C	A	A	A	351	27	KRT16	1	1
GDPD1	284161	broad.mit.edu	37	17	57311875	57311875	+	Silent	SNP	T	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:57311875T>C	uc002ixk.1	+	c.165T>C	c.(163-165)AAT>AAC	p.N55N	GDPD1_uc002ixj.2_Silent_p.N55N	NM_182569	NP_872375	Q8N9F7	GDPD1_HUMAN	glycerophosphodiester phosphodiesterase domain	55	Cytoplasmic (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)													0.071429	1.119965	14.364287	5	65	KEEP	---	---	---	---	capture		Silent	SNP	57311875	57311875	6591	17	T	C	C	C	634	49	GDPD1	4	4
RGS9	8787	broad.mit.edu	37	17	63133675	63133675	+	Missense_Mutation	SNP	A	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:63133675A>G	uc002jfe.2	+	c.17A>G	c.(16-18)CAA>CGA	p.Q6R	RGS9_uc010dem.2_Missense_Mutation_p.Q6R|RGS9_uc002jfd.2_Missense_Mutation_p.Q6R|RGS9_uc002jff.2_Non-coding_Transcript	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	6					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)	2														0.129032	13.661918	21.965674	8	54	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	63133675	63133675	13787	17	A	G	G	G	65	5	RGS9	4	4
TNK1	8711	broad.mit.edu	37	17	7291918	7291918	+	Missense_Mutation	SNP	A	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:7291918A>C	uc002ggi.3	+	c.1686A>C	c.(1684-1686)AGA>AGC	p.R562S	TNK1_uc002ggj.3_Missense_Mutation_p.R557S|TNK1_uc010cmf.2_Non-coding_Transcript|TNK1_uc002ggk.3_Intron	NM_003985	NP_003976	Q13470	TNK1_HUMAN	tyrosine kinase, non-receptor, 1	562	Pro-rich.				protein autophosphorylation	membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(122;0.157)								112				0.225806	18.806933	20.949775	7	24	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	7291918	7291918	16858	17	A	C	C	C	115	9	TNK1	4	4
SERPINB7	8710	broad.mit.edu	37	18	61460494	61460494	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:61460494G>T	uc002ljl.2	+	c.319G>T	c.(319-321)GTG>TTG	p.V107L	SERPINB7_uc002ljm.2_Missense_Mutation_p.V107L|SERPINB7_uc010xet.1_Missense_Mutation_p.V90L|SERPINB7_uc010dqg.2_Missense_Mutation_p.V107L	NM_001040147	NP_001035237	O75635	SPB7_HUMAN	serine (or cysteine) proteinase inhibitor, clade	107					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			lung(2)|central_nervous_system(1)	3		Esophageal squamous(42;0.129)												0.051724	-6.026418	6.307753	3	55	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	61460494	61460494	14594	18	G	T	T	T	468	36	SERPINB7	2	2
RTTN	25914	broad.mit.edu	37	18	67727182	67727182	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:67727182G>A	uc002lkp.2	-	c.4844C>T	c.(4843-4845)TCA>TTA	p.S1615L	RTTN_uc002lko.2_Non-coding_Transcript|RTTN_uc010xfb.1_Missense_Mutation_p.S703L|RTTN_uc010dqp.2_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1615							binding			ovary(3)|pancreas(2)|breast(1)|central_nervous_system(1)	7		Esophageal squamous(42;0.129)												0.37931	61.531904	62.274546	22	36	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	67727182	67727182	14217	18	G	A	A	A	585	45	RTTN	2	2
SALL3	27164	broad.mit.edu	37	18	76754914	76754914	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:76754914C>A	uc002lmt.2	+	c.2923C>A	c.(2923-2925)CCC>ACC	p.P975T	SALL3_uc010dra.2_Intron	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	975					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)										0.454545	25.8385	25.878997	10	12	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	76754914	76754914	14292	18	C	A	A	A	390	30	SALL3	2	2
COL5A3	50509	broad.mit.edu	37	19	10102467	10102467	+	Silent	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:10102467G>A	uc002mmq.1	-	c.1944C>T	c.(1942-1944)TCC>TCT	p.S648S		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	648	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)	9			Epithelial(33;7.11e-05)											0.053571	-10.322611	13.208792	6	106	KEEP	---	---	---	---	capture		Silent	SNP	10102467	10102467	3836	19	G	A	A	A	548	43	COL5A3	2	2
KEAP1	9817	broad.mit.edu	37	19	10600347	10600347	+	Missense_Mutation	SNP	A	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:10600347A>T	uc002moq.1	-	c.1508T>A	c.(1507-1509)ATG>AAG	p.M503K	KEAP1_uc002mop.1_Missense_Mutation_p.M221K|KEAP1_uc002mor.1_Missense_Mutation_p.M503K	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	503	Kelch 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			breast(2)|ovary(1)|pancreas(1)	4			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)											0.309859	61.629525	63.913542	22	49	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	10600347	10600347	8447	19	A	T	T	T	104	8	KEAP1	3	3
KRI1	65095	broad.mit.edu	37	19	10668512	10668512	+	Silent	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:10668512C>A	uc002moy.1	-	c.1437G>T	c.(1435-1437)ACG>ACT	p.T479T	KRI1_uc002mow.1_Silent_p.T98T|KRI1_uc002mox.1_Silent_p.T475T	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	479										ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)											0.15625	8.453487	12.065406	5	27	KEEP	---	---	---	---	capture		Silent	SNP	10668512	10668512	8759	19	C	A	A	A	288	23	KRI1	1	1
EMR2	30817	broad.mit.edu	37	19	14854511	14854511	+	Silent	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:14854511G>T	uc002mzp.1	-	c.2269C>A	c.(2269-2271)CGG>AGG	p.R757R	EMR2_uc010dzs.1_Silent_p.R216R|EMR2_uc010xnw.1_Silent_p.R699R|EMR2_uc002mzo.1_Silent_p.R746R|EMR2_uc002mzq.1_Silent_p.R697R|EMR2_uc002mzr.1_Silent_p.R708R|EMR2_uc002mzs.1_Silent_p.R615R|EMR2_uc002mzt.1_Silent_p.R653R|EMR2_uc002mzu.1_Silent_p.R664R|EMR2_uc010xnx.1_Non-coding_Transcript	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	757	Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)	1														0.396396	119.676767	120.71817	44	67	KEEP	---	---	---	---	capture		Silent	SNP	14854511	14854511	5298	19	G	T	T	T	506	39	EMR2	1	1
KIAA0892	23383	broad.mit.edu	37	19	19449665	19449665	+	Silent	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:19449665G>T	uc002nmk.3	+	c.468G>T	c.(466-468)ACG>ACT	p.T156T		NM_015329	NP_056144	Q9Y6X3	SCC4_HUMAN	hypothetical protein LOC23383 precursor	156					cell division|maintenance of mitotic sister chromatid cohesion	chromatin|nucleoplasm|SMC loading complex	protein N-terminus binding				0														0.136364	4.709132	7.526967	3	19	KEEP	---	---	---	---	capture		Silent	SNP	19449665	19449665	8503	19	G	T	T	T	483	38	KIAA0892	1	1
NLRP13	126204	broad.mit.edu	37	19	56424482	56424482	+	Missense_Mutation	SNP	A	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:56424482A>T	uc010ygg.1	-	c.701T>A	c.(700-702)GTG>GAG	p.V234E		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	234	NACHT.						ATP binding			ovary(3)|skin(2)|pancreas(1)|lung(1)	7		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)										0.341615	159.272305	162.842866	55	106	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	56424482	56424482	10878	19	A	T	T	T	78	6	NLRP13	3	3
PALM	5064	broad.mit.edu	37	19	746366	746366	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:746366C>A	uc002lpm.1	+	c.716C>A	c.(715-717)GCG>GAG	p.A239E	PALM_uc002lpn.1_Missense_Mutation_p.A195E|PALM_uc010xfu.1_Missense_Mutation_p.A104E	NM_002579	NP_002570	O75781	PALM_HUMAN	paralemmin isoform 1	239					cellular component movement|regulation of cell shape	cytoplasmic membrane-bounded vesicle|integral to plasma membrane					0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)|Lung(535;0.201)										0.294118	43.301408	45.238625	15	36	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	746366	746366	11824	19	C	A	A	A	351	27	PALM	1	1
S1PR1	1901	broad.mit.edu	37	1	101705215	101705215	+	Nonsense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:101705215C>A	uc001dud.2	+	c.675C>A	c.(673-675)TAC>TAA	p.Y225*	S1PR1_uc009weg.2_Nonsense_Mutation_p.Y225*	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	225	Cytoplasmic (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)	2														0.197368	31.685126	38.166732	15	61	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	101705215	101705215	14273	1	C	A	A	A	259	20	S1PR1	5	2
CLCN6	1185	broad.mit.edu	37	1	11896114	11896114	+	Silent	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:11896114G>A	uc001ate.3	+	c.1884G>A	c.(1882-1884)ACG>ACA	p.T628T	CLCN6_uc010oat.1_Silent_p.T344T|CLCN6_uc010oau.1_Silent_p.T606T	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	628	Cytoplasmic (By similarity).|CBS 1.				cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)										0.130435	4.709111	7.764538	3	20	KEEP	---	---	---	---	capture		Silent	SNP	11896114	11896114	3603	1	G	A	A	A	496	39	CLCN6	1	1
LCE1F	353137	broad.mit.edu	37	1	152748899	152748899	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:152748899C>A	uc010pdv.1	+	c.52C>A	c.(52-54)CCC>ACC	p.P18T		NM_178354	NP_848131	Q5T754	LCE1F_HUMAN	late cornified envelope 1F	18	Pro-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)											0.191011	31.818429	39.767997	17	72	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	152748899	152748899	8987	1	C	A	A	A	390	30	LCE1F	2	2
LCE1F	353137	broad.mit.edu	37	1	152749165	152749165	+	Silent	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:152749165C>T	uc010pdv.1	+	c.318C>T	c.(316-318)TGC>TGT	p.C106C		NM_178354	NP_848131	Q5T754	LCE1F_HUMAN	late cornified envelope 1F	106					keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)											0.166667	14.279655	19.329238	8	40	KEEP	---	---	---	---	capture		Silent	SNP	152749165	152749165	8987	1	C	T	T	T	350	27	LCE1F	1	1
HCN3	57657	broad.mit.edu	37	1	155257693	155257693	+	Silent	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:155257693G>T	uc001fjz.1	+	c.1764G>T	c.(1762-1764)CGG>CGT	p.R588R	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_Silent_p.R283R	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	588	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)											0.15873	16.807448	23.802871	10	53	KEEP	---	---	---	---	capture		Silent	SNP	155257693	155257693	7280	1	G	T	T	T	548	43	HCN3	2	2
ASH1L	55870	broad.mit.edu	37	1	155408569	155408569	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:155408569G>A	uc009wqq.2	-	c.5377C>T	c.(5377-5379)CAT>TAT	p.H1793Y	ASH1L_uc001fkt.2_Missense_Mutation_p.H1793Y	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1793					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|RNA polymerase II transcription factor activity|zinc ion binding			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)											0.076471	0.548799	31.772983	13	157	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	155408569	155408569	1060	1	G	A	A	A	611	47	ASH1L	2	2
UBQLN4	56893	broad.mit.edu	37	1	156020169	156020169	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:156020169C>T	uc001fna.2	-	c.654G>A	c.(652-654)ATG>ATA	p.M218I	UBQLN4_uc010pgx.1_Missense_Mutation_p.M198I	NM_020131	NP_064516	Q9NRR5	UBQL4_HUMAN	ataxin-1 ubiquitin-like interacting protein	218						cytosol|endoplasmic reticulum membrane|nucleus	identical protein binding			pancreas(1)	1	Hepatocellular(266;0.133)|all_neural(408;0.195)													0.295597	121.149675	127.100486	47	112	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	156020169	156020169	17457	1	C	T	T	T	377	29	UBQLN4	2	2
SPTA1	6708	broad.mit.edu	37	1	158632684	158632684	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:158632684G>T	uc001fst.1	-	c.2272C>A	c.(2272-2274)CAT>AAT	p.H758N		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	758	Spectrin 8.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|breast(1)	5	all_hematologic(112;0.0378)													0.134146	16.127671	26.724795	11	71	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	158632684	158632684	15630	1	G	T	T	T	611	47	SPTA1	2	2
SPTA1	6708	broad.mit.edu	37	1	158636276	158636276	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:158636276G>T	uc001fst.1	-	c.2050C>A	c.(2050-2052)CAT>AAT	p.H684N		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	684	Spectrin 7.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|breast(1)	5	all_hematologic(112;0.0378)													0.065217	-2.680767	6.320587	3	43	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	158636276	158636276	15630	1	G	T	T	T	598	46	SPTA1	2	2
BAT2L2	23215	broad.mit.edu	37	1	171504603	171504603	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:171504603G>T	uc010pmg.1	+	c.1904G>T	c.(1903-1905)CGC>CTC	p.R635L		NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	635	Glu-rich.						protein C-terminus binding				0														0.032967	-15.037945	6.608004	3	88	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	171504603	171504603	1342	1	G	T	T	T	494	38	BAT2L2	1	1
SEC16B	89866	broad.mit.edu	37	1	177930770	177930770	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:177930770G>A	uc001glj.1	-	c.742C>T	c.(742-744)CGG>TGG	p.R248W	SEC16B_uc001glk.1_5'UTR|SEC16B_uc001glh.1_5'Flank|SEC16B_uc009wwz.1_5'UTR|SEC16B_uc001gli.1_Missense_Mutation_p.R248W|SEC16B_uc001gll.3_Missense_Mutation_p.R248W	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	248					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4														0.084337	-0.841921	13.723508	7	76	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	177930770	177930770	14473	1	G	A	A	A	493	38	SEC16B	1	1
TDRD5	163589	broad.mit.edu	37	1	179604812	179604812	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:179604812C>A	uc010pnp.1	+	c.1310C>A	c.(1309-1311)ACA>AAA	p.T437K	TDRD5_uc001gnf.1_Missense_Mutation_p.T437K|TDRD5_uc001gnh.1_5'UTR	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	437					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|central_nervous_system(1)|skin(1)	4														0.216216	20.378539	23.128299	8	29	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	179604812	179604812	16260	1	C	A	A	A	221	17	TDRD5	2	2
NFASC	23114	broad.mit.edu	37	1	204937421	204937421	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:204937421G>A	uc001hbj.2	+	c.751G>A	c.(751-753)GGC>AGC	p.G251S	NFASC_uc001hbh.2_Missense_Mutation_p.G251S|NFASC_uc010pqz.1_Missense_Mutation_p.G245S|NFASC_uc010pra.1_Missense_Mutation_p.G262S|NFASC_uc001hbi.2_Missense_Mutation_p.G262S|NFASC_uc009xbg.1_Missense_Mutation_p.G335S|NFASC_uc010prb.1_Missense_Mutation_p.G262S|NFASC_uc010prc.1_5'UTR|NFASC_uc001hbk.1_Missense_Mutation_p.G72S	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	251	Extracellular (Potential).|Ig-like C2-type 3.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)	4	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)											0.107527	8.761345	23.061264	10	83	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	204937421	204937421	10759	1	G	A	A	A	559	43	NFASC	2	2
OBSCN	84033	broad.mit.edu	37	1	228481317	228481317	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:228481317G>T	uc009xez.1	+	c.11131G>T	c.(11131-11133)GCC>TCC	p.A3711S	OBSCN_uc001hsn.2_Missense_Mutation_p.A3711S|OBSCN_uc001hsq.1_Missense_Mutation_p.A967S	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3711					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			large_intestine(7)|breast(5)|ovary(4)|skin(2)|stomach(1)|central_nervous_system(1)|pancreas(1)	21		Prostate(94;0.0405)								4006				0.133333	7.91601	13.792237	6	39	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	228481317	228481317	11217	1	G	T	T	T	559	43	OBSCN	2	2
RYR2	6262	broad.mit.edu	37	1	237774102	237774102	+	Missense_Mutation	SNP	A	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:237774102A>G	uc001hyl.1	+	c.4724A>G	c.(4723-4725)CAC>CGC	p.H1575R		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1575	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|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)											0.176471	5.429058	7.095041	3	14	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	237774102	237774102	14249	1	A	G	G	G	78	6	RYR2	4	4
PLD5	200150	broad.mit.edu	37	1	242264084	242264084	+	Nonsense_Mutation	SNP	T	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:242264084T>A	uc001hzo.1	-	c.964A>T	c.(964-966)AAA>TAA	p.K322*	PLD5_uc001hzl.3_Nonsense_Mutation_p.K352*|PLD5_uc001hzm.3_Nonsense_Mutation_p.K204*|PLD5_uc001hzn.1_Nonsense_Mutation_p.K414*	NM_152666	NP_689879	Q8N7P1	PLD5_HUMAN	phospholipase D5	414						integral to membrane	catalytic activity			ovary(5)	5	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)											0.189474	33.501265	42.066979	18	77	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	242264084	242264084	12475	1	T	A	A	A	806	62	PLD5	5	3
OR2T8	343172	broad.mit.edu	37	1	248084381	248084381	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:248084381C>T	uc010pzc.1	+	c.62C>T	c.(61-63)GCC>GTC	p.A21V		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	21	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)											0.063953	-13.323495	20.720812	11	161	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	248084381	248084381	11436	1	C	T	T	T	338	26	OR2T8	2	2
HPCAL4	51440	broad.mit.edu	37	1	40149725	40149725	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:40149725C>A	uc001cdr.2	-	c.262G>T	c.(262-264)GCC>TCC	p.A88S	HPCAL4_uc010oix.1_Intron	NM_016257	NP_057341	Q9UM19	HPCL4_HUMAN	hippocalcin-like protein 4	88	EF-hand 2.				central nervous system development	intracellular	calcium ion binding			central_nervous_system(1)	1	all_cancers(7;4.65e-13)|Lung NSC(20;2.88e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)											0.075	-0.681124	6.708358	3	37	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	40149725	40149725	7623	1	C	A	A	A	351	27	HPCAL4	1	1
C1orf173	127254	broad.mit.edu	37	1	75065513	75065513	+	Missense_Mutation	SNP	A	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:75065513A>G	uc001dgg.2	-	c.1592T>C	c.(1591-1593)TTG>TCG	p.L531S	C1orf173_uc001dgi.3_Missense_Mutation_p.L325S	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	531	Glu-rich.									ovary(3)|central_nervous_system(1)	4														0.032967	-31.10972	12.221904	6	176	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	75065513	75065513	2081	1	A	G	G	G	65	5	C1orf173	4	4
CASS4	57091	broad.mit.edu	37	20	55012296	55012297	+	Missense_Mutation	DNP	TG	CT	CT			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:55012296_55012297TG>CT	uc002xxp.2	+	c.113_114TG>CT	c.(112-114)CTG>CCT	p.L38P	CASS4_uc002xxq.3_Missense_Mutation_p.L38P|CASS4_uc002xxr.2_Missense_Mutation_p.L38P|CASS4_uc010zze.1_Missense_Mutation_p.L38P|CASS4_uc010gio.2_Missense_Mutation_p.L38P	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	38	SH3.				cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)	2														0.101266	11.343148	23.870297	8	71	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	55012296	55012297	2802	20	TG	CT	CT	CT	715	55	CASS4	4	4
ZNF831	128611	broad.mit.edu	37	20	57768653	57768653	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:57768653C>T	uc002yan.2	+	c.2579C>T	c.(2578-2580)GCC>GTC	p.A860V		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	860						intracellular	nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(29;0.0085)													0.044944	-12.952668	6.752937	4	85	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	57768653	57768653	18784	20	C	T	T	T	338	26	ZNF831	2	2
ZBTB46	140685	broad.mit.edu	37	20	62422029	62422029	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:62422029C>A	uc002ygv.1	-	c.82G>T	c.(82-84)GGC>TGC	p.G28C	ZBTB46_uc002ygu.2_Non-coding_Transcript	NM_025224	NP_079500	Q6ZMU8	Q6ZMU8_HUMAN	zinc finger and BTB domain containing 46	28						nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)													0.085714	0.710686	6.788478	3	32	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	62422029	62422029	18134	20	C	A	A	A	299	23	ZBTB46	1	1
CRYZL1	9946	broad.mit.edu	37	21	34974653	34974653	+	Splice_Site_SNP	SNP	T	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr21:34974653T>A	uc011adw.1	-	c.466_splice	c.e8-1	p.A156_splice	DONSON_uc002ysn.1_Intron|CRYZL1_uc002ysr.1_Splice_Site_SNP_p.A180_splice|CRYZL1_uc002yss.1_Splice_Site_SNP|CRYZL1_uc002yst.1_Splice_Site_SNP	NM_145858	NP_665857			crystallin, zeta-like 1						oxidation-reduction process|quinone cofactor metabolic process	cytosol	NADP binding|NADPH:quinone reductase activity|zinc ion binding				0														0.210526	31.471355	35.88716	12	45	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	34974653	34974653	4062	21	T	A	A	A	715	55	CRYZL1	5	3
IL1RL1	9173	broad.mit.edu	37	2	102956626	102956627	+	Missense_Mutation	DNP	CA	AG	AG			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:102956626_102956627CA>AG	uc002tbu.1	+	c.341_342CA>AG	c.(340-342)CCA>CAG	p.P114Q	IL1RL1_uc010ywa.1_5'UTR|IL18R1_uc002tbw.3_Intron|IL1RL1_uc002tbv.2_Missense_Mutation_p.P114Q	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	114	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														0.242424	41.76585	45.759255	16	50	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	102956626	102956627	7964	2	CA	AG	AG	AG	273	21	IL1RL1	2	2
DPP10	57628	broad.mit.edu	37	2	116066913	116066913	+	Silent	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:116066913C>A	uc002tle.2	+	c.171C>A	c.(169-171)GTC>GTA	p.V57V	DPP10_uc002tla.1_Silent_p.V53V|DPP10_uc002tlb.1_Silent_p.V3V|DPP10_uc002tlc.1_Silent_p.V49V|DPP10_uc002tlf.1_Silent_p.V46V	NM_001004360	NP_001004360	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform short	53	Mediates effects on KCND2.|Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|breast(1)|skin(1)	9														0.042857	-9.240059	6.455848	3	67	KEEP	---	---	---	---	capture		Silent	SNP	116066913	116066913	4911	2	C	A	A	A	366	29	DPP10	2	2
GREB1	9687	broad.mit.edu	37	2	11740993	11740993	+	Missense_Mutation	SNP	T	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:11740993T>C	uc002rbk.1	+	c.2401T>C	c.(2401-2403)TGC>CGC	p.C801R	GREB1_uc002rbo.1_Missense_Mutation_p.C435R	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	801						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		Ovarian(39;850 945 2785 23371 33093)								0.191111	91.892297	111.956784	43	182	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	11740993	11740993	7037	2	T	C	C	C	715	55	GREB1	4	4
MKI67IP	84365	broad.mit.edu	37	2	122488515	122488515	+	Missense_Mutation	SNP	C	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:122488515C>G	uc002tnk.2	-	c.518G>C	c.(517-519)AGG>ACG	p.R173T	MKI67IP_uc010fls.2_Missense_Mutation_p.R173T	NM_032390	NP_115766	Q9BYG3	MK67I_HUMAN	MKI67 interacting nucleolar phosphoprotein	173					protein complex assembly|rRNA metabolic process|rRNA transcription	condensed nuclear chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|protein binding|RNA binding				0														0.09375	9.596597	30.834403	12	116	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	122488515	122488515	9989	2	C	G	G	G	312	24	MKI67IP	3	3
TUBA3E	112714	broad.mit.edu	37	2	130953906	130953906	+	Silent	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:130953906G>T	uc002tqv.2	-	c.42C>A	c.(40-42)GTC>GTA	p.V14V		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	14					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0	Colorectal(110;0.1)													0.180723	24.69856	32.639069	15	68	KEEP	---	---	---	---	capture		Silent	SNP	130953906	130953906	17303	2	G	T	T	T	522	41	TUBA3E	2	2
CCDC74A	90557	broad.mit.edu	37	2	132288316	132288316	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:132288316G>T	uc002tta.2	+	c.460G>T	c.(460-462)GGC>TGC	p.G154C	CCDC74A_uc002ttb.2_Intron	NM_138770	NP_620125	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	154											0														0.072289	-3.321256	12.315351	6	77	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	132288316	132288316	2970	2	G	T	T	T	559	43	CCDC74A	2	2
NCKAP5	344148	broad.mit.edu	37	2	133486443	133486443	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:133486443C>T	uc002ttp.2	-	c.5526G>A	c.(5524-5526)ATG>ATA	p.M1842I	NCKAP5_uc002ttq.2_Missense_Mutation_p.M523I	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1842							protein binding				0														0.186667	52.410273	66.211099	28	122	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	133486443	133486443	10622	2	C	T	T	T	273	21	NCKAP5	2	2
LRP1B	53353	broad.mit.edu	37	2	141625676	141625676	+	Silent	SNP	T	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:141625676T>A	uc002tvj.1	-	c.4326A>T	c.(4324-4326)ACA>ACT	p.T1442T	LRP1B_uc010fnl.1_Silent_p.T624T	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1442	Extracellular (Potential).|LDL-receptor class B 12.				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)			0.213115	60.180558	69.459694	26	96	KEEP	---	---	---	---	capture		Silent	SNP	141625676	141625676	9328	2	T	A	A	A	704	55	LRP1B	3	3
HOXD8	3234	broad.mit.edu	37	2	176995521	176995521	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:176995521C>A	uc002uko.2	+	c.427C>A	c.(427-429)CAG>AAG	p.Q143K	HOXD8_uc002ukn.2_Intron|HOXD8_uc002ukp.2_Missense_Mutation_p.Q143K	NM_019558	NP_062458	P13378	HXD8_HUMAN	homeobox D8	143					anterior/posterior axis specification, embryo	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)										0.177966	40.25588	51.745709	21	97	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	176995521	176995521	7617	2	C	A	A	A	221	17	HOXD8	2	2
TTN	7273	broad.mit.edu	37	2	179398651	179398651	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:179398651C>T	uc010zfg.1	-	c.94987G>A	c.(94987-94989)GAA>AAA	p.E31663K	TTN_uc010zfh.1_Missense_Mutation_p.E25358K|TTN_uc010zfi.1_Missense_Mutation_p.E25291K|TTN_uc010zfj.1_Missense_Mutation_p.E25166K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1386										ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)							8722				0.132075	11.688228	18.657658	7	46	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	179398651	179398651	17290	2	C	T	T	T	416	32	TTN	2	2
ZNF804A	91752	broad.mit.edu	37	2	185731221	185731221	+	Nonsense_Mutation	SNP	T	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:185731221T>A	uc002uph.2	+	c.237T>A	c.(235-237)TAT>TAA	p.Y79*		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	79	C2H2-type.					intracellular	zinc ion binding			ovary(6)|large_intestine(1)|pancreas(1)	8														0.059701	-4.453675	9.132251	4	63	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	185731221	185731221	18768	2	T	A	A	A	660	51	ZNF804A	5	3
COL3A1	1281	broad.mit.edu	37	2	189849926	189849926	+	Missense_Mutation	SNP	A	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:189849926A>T	uc002uqj.1	+	c.286A>T	c.(286-288)ACT>TCT	p.T96S		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	96					axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)					1079				0.232558	49.963783	55.590381	20	66	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	189849926	189849926	3826	2	A	T	T	T	182	14	COL3A1	3	3
IRS1	3667	broad.mit.edu	37	2	227660594	227660594	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:227660594C>A	uc002voh.3	-	c.2861G>T	c.(2860-2862)TGG>TTG	p.W954L		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	954					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			central_nervous_system(4)|lung(3)|ovary(1)|pancreas(1)	9		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)						143				0.150538	22.382091	33.275213	14	79	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	227660594	227660594	8144	2	C	A	A	A	273	21	IRS1	2	2
ANO7	50636	broad.mit.edu	37	2	242142800	242142800	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:242142800G>A	uc002wax.2	+	c.938G>A	c.(937-939)CGC>CAC	p.R313H		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	313	Extracellular (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3														0.272727	6.919048	7.432008	3	8	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	242142800	242142800	710	2	G	A	A	A	494	38	ANO7	1	1
GALNT14	79623	broad.mit.edu	37	2	31147016	31147016	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:31147016G>T	uc002rns.2	-	c.1364C>A	c.(1363-1365)GCC>GAC	p.A455D	GALNT14_uc002rnq.2_Missense_Mutation_p.A430D|GALNT14_uc002rnr.2_Missense_Mutation_p.A450D|GALNT14_uc010ymr.1_Missense_Mutation_p.A415D|GALNT14_uc010ezo.1_Missense_Mutation_p.A417D	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	450	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	Acute lymphoblastic leukemia(172;0.155)													0.222222	127.613144	144.867527	54	189	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	31147016	31147016	6476	2	G	T	T	T	546	42	GALNT14	2	2
TEKT4	150483	broad.mit.edu	37	2	95537412	95537412	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:95537412G>A	uc002stw.1	+	c.88G>A	c.(88-90)GCC>ACC	p.A30T	TEKT4_uc010fhr.1_Non-coding_Transcript	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	30					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)	2														0.129032	3.777724	7.942147	4	27	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	95537412	95537412	16282	2	G	A	A	A	546	42	TEKT4	2	2
TATDN2	9797	broad.mit.edu	37	3	10320619	10320619	+	Silent	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:10320619G>A	uc003bvg.2	+	c.2196G>A	c.(2194-2196)ACG>ACA	p.T732T	TATDN2_uc003bvf.2_Silent_p.T732T|TATDN2_uc011atr.1_Silent_p.T732T|TATDN2_uc011ats.1_Non-coding_Transcript|TATDN2_uc011att.1_Non-coding_Transcript|TATDN2_uc011atu.1_5'Flank|TATDN2_uc011atv.1_5'Flank|GHRLOS_uc011atw.1_5'Flank|GHRLOS_uc011atx.1_5'Flank|GHRLOS_uc011aty.1_5'Flank|GHRLOS_uc011atz.1_5'Flank|GHRLOS_uc011aua.1_5'Flank|GHRLOS_uc010hdl.2_5'Flank|GHRLOS_uc011aub.1_5'Flank|GHRLOS_uc010hdm.2_5'Flank|GHRLOS_uc011auc.1_5'Flank|GHRLOS_uc011aud.1_5'Flank|GHRLOS_uc011aue.1_5'Flank|GHRLOS_uc011auf.1_5'Flank|GHRLOS_uc011aug.1_5'Flank	NM_014760	NP_055575	Q93075	TATD2_HUMAN	TatD DNase domain containing 2	732						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding			pancreas(2)	2														0.135135	6.750727	11.524931	5	32	KEEP	---	---	---	---	capture		Silent	SNP	10320619	10320619	16114	3	G	A	A	A	496	39	TATDN2	1	1
SEC22A	26984	broad.mit.edu	37	3	122942517	122942517	+	Nonsense_Mutation	SNP	T	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:122942517T>G	uc003ege.2	+	c.294T>G	c.(292-294)TAT>TAG	p.Y98*	SEC22A_uc003egf.2_Nonsense_Mutation_p.Y98*	NM_012430	NP_036562	Q96IW7	SC22A_HUMAN	SEC22 vesicle trafficking protein homolog A	98	Cytoplasmic (Potential).|Longin.				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|integral to membrane	transporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0548)										0.27027	166.680418	175.478736	50	135	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	122942517	122942517	14474	3	T	G	G	G	634	49	SEC22A	5	4
LRRC15	131578	broad.mit.edu	37	3	194081021	194081021	+	Missense_Mutation	SNP	T	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:194081021T>A	uc003ftt.2	-	c.770A>T	c.(769-771)TAC>TTC	p.Y257F	LRRC15_uc003ftu.2_Missense_Mutation_p.Y251F	NM_001135057	NP_001128529	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform a	251	LRR 9.|Extracellular (Potential).					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)										0.280702	42.386007	44.843817	16	41	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	194081021	194081021	9344	3	T	A	A	A	741	57	LRRC15	3	3
BAP1	8314	broad.mit.edu	37	3	52437180	52437181	+	Missense_Mutation	DNP	AG	TA	TA			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:52437180_52437181AG>TA	uc003ddx.2	-	c.1863_1864CT>TA	c.(1861-1866)CCCTTG>CCTATG	p.L622M	BAP1_uc003ddw.2_Intron|BAP1_uc010hmg.2_Non-coding_Transcript|BAP1_uc010hmh.2_Intron	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	622	Interaction with BRCA1.				monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			eye(28)|lung(2)|ovary(1)|breast(1)	32				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		GBM(101;493 1458 7992 21037 25532)			(MELJUSO-Tumor)	294				0.095238	1.271818	8.176608	4	38	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	52437180	52437181	1332	3	AG	TA	TA	TA	37	3	BAP1	3	3
ADAMTS9	56999	broad.mit.edu	37	3	64589670	64589670	+	Silent	SNP	C	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:64589670C>G	uc003dmg.2	-	c.3675G>C	c.(3673-3675)CTG>CTC	p.L1225L	ADAMTS9_uc011bfo.1_Silent_p.L1197L|ADAMTS9_uc003dmh.1_Silent_p.L1054L|ADAMTS9_uc011bfp.1_Silent_p.L136L	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1225	TSP type-1 7.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)	3		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)										0.323077	67.552224	69.358587	21	44	KEEP	---	---	---	---	capture		Silent	SNP	64589670	64589670	274	3	C	G	G	G	314	25	ADAMTS9	3	3
OR5H6	79295	broad.mit.edu	37	3	97983253	97983253	+	Missense_Mutation	SNP	C	A	A	rs36040433		TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:97983253C>A	uc003dsi.1	+	c.125C>A	c.(124-126)CCG>CAG	p.P42Q		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	42	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|skin(1)	2														0.213198	104.843819	119.812321	42	155	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	97983253	97983253	11573	3	C	A	A	A	299	23	OR5H6	1	1
DCLK2	166614	broad.mit.edu	37	4	151169531	151169531	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:151169531G>T	uc003ilo.3	+	c.2001G>T	c.(1999-2001)TGG>TGT	p.W667C	DCLK2_uc003ilm.3_Missense_Mutation_p.W650C|DCLK2_uc003iln.3_Missense_Mutation_p.W649C|DCLK2_uc003ilp.3_Non-coding_Transcript	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	650	Protein kinase.				intracellular signal transduction|protein phosphorylation	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					GBM(195;186 2215 13375 16801 37459)				411				0.076923	-0.505738	6.640555	3	36	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	151169531	151169531	4463	4	G	T	T	T	559	43	DCLK2	2	2
FGB	2244	broad.mit.edu	37	4	155490722	155490722	+	Missense_Mutation	SNP	G	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:155490722G>C	uc003ioa.3	+	c.1015G>C	c.(1015-1017)GAA>CAA	p.E339Q	FGB_uc003iob.3_Intron|FGB_uc010ipv.2_Missense_Mutation_p.E277Q|FGB_uc010ipw.2_Intron|FGB_uc003ioc.3_Missense_Mutation_p.E120Q	NM_005141	NP_005132	P02675	FIBB_HUMAN	fibrinogen, beta chain preproprotein	339	Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen|soluble fraction	chaperone binding|eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)	2	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	NSCLC(106;1133 1613 21870 46110 52656)								0.153846	33.707915	44.117578	14	77	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	155490722	155490722	6068	4	G	C	C	C	429	33	FGB	3	3
MARCH1	55016	broad.mit.edu	37	4	164506998	164506998	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:164506998G>A	uc003iqs.1	-	c.326C>T	c.(325-327)TCC>TTC	p.S109F	MARCH1_uc003iqr.1_Missense_Mutation_p.S92F	NM_017923	NP_060393	Q8TCQ1	MARH1_HUMAN	membrane-associated RING-CH protein I	109	RING-CH-type.					cytoplasmic vesicle membrane|early endosome membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|plasma membrane	ubiquitin-protein ligase activity|zinc ion binding			lung(1)	1	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)												0.134328	13.527959	22.217243	9	58	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	164506998	164506998	9681	4	G	A	A	A	533	41	MARCH1	2	2
WDR17	116966	broad.mit.edu	37	4	177069485	177069485	+	Silent	SNP	T	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:177069485T>C	uc003iuj.2	+	c.1968T>C	c.(1966-1968)TAT>TAC	p.Y656Y	WDR17_uc003iuk.2_Silent_p.Y632Y|WDR17_uc003ium.3_Silent_p.Y632Y|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_5'Flank	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	656	WD 12.									ovary(2)|pancreas(1)	3		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)										0.20339	26.667237	31.486168	12	47	KEEP	---	---	---	---	capture		Silent	SNP	177069485	177069485	17850	4	T	C	C	C	660	51	WDR17	4	4
NEIL3	55247	broad.mit.edu	37	4	178257420	178257420	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:178257420G>T	uc003iut.2	+	c.572G>T	c.(571-573)GGG>GTG	p.G191V	NEIL3_uc010irs.2_Missense_Mutation_p.G94V	NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	191					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)										0.127119	18.755921	34.748957	15	103	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	178257420	178257420	10719	4	G	T	T	T	559	43	NEIL3	2	2
KIT	3815	broad.mit.edu	37	4	55569902	55569902	+	Missense_Mutation	SNP	G	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:55569902G>C	uc010igr.2	+	c.769G>C	c.(769-771)GAG>CAG	p.E257Q	KIT_uc010igs.2_Missense_Mutation_p.E257Q	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	257	Extracellular (Potential).|Ig-like C2-type 3.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3041)|haematopoietic_and_lymphoid_tissue(1544)|skin(98)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(10)|lung(6)|thymus(5)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	4855	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)			1		431				0.098039	5.934364	14.182252	5	46	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	55569902	55569902	8641	4	G	C	C	C	533	41	KIT	3	3
KIAA0232	9778	broad.mit.edu	37	4	6860175	6860175	+	Nonsense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:6860175G>T	uc003gjr.3	+	c.460G>T	c.(460-462)GAG>TAG	p.E154*	KIAA0232_uc003gjq.3_Nonsense_Mutation_p.E154*	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	154							ATP binding			ovary(2)	2														0.117647	4.374054	9.262012	4	30	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	6860175	6860175	8470	4	G	T	T	T	429	33	KIAA0232	5	2
WDFY3	23001	broad.mit.edu	37	4	85662997	85662997	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:85662997G>A	uc003hpd.2	-	c.6151C>T	c.(6151-6153)CGT>TGT	p.R2051C		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2051						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)										0.090909	2.593861	19.303929	9	90	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	85662997	85662997	17842	4	G	A	A	A	494	38	WDFY3	1	1
TMSL3	7117	broad.mit.edu	37	4	91760173	91760173	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:91760173C>A	uc003hsy.2	-	c.16G>T	c.(16-18)GAT>TAT	p.D6Y	FAM190A_uc003hsv.3_Intron|FAM190A_uc010ikv.2_Intron|FAM190A_uc003hsx.2_Intron	NM_183049	NP_898870	A8MW06	TMSL3_HUMAN	thymosin-like 3	6					actin cytoskeleton organization|sequestering of actin monomers	cytoplasm|cytoskeleton	actin binding				0		all_cancers(2;6.48e-24)|all_epithelial(2;3.86e-25)|Colorectal(2;8.52e-12)|all_lung(2;3.73e-07)|Lung NSC(2;7.99e-07)|Renal(2;0.0243)|Hepatocellular(203;0.0411)		Epithelial(2;5.28e-11)|OV - Ovarian serous cystadenocarcinoma(123;8.9e-10)|all cancers(2;3.21e-09)|STAD - Stomach adenocarcinoma(1;0.0201)										0.126582	22.836657	44.472777	20	138	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	91760173	91760173	16800	4	C	A	A	A	403	31	TMSL3	1	1
PCDHA5	56143	broad.mit.edu	37	5	140203159	140203159	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:140203159C>T	uc003lhl.2	+	c.1799C>T	c.(1798-1800)TCG>TTG	p.S600L	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_Missense_Mutation_p.S600L|PCDHA5_uc003lhj.1_Missense_Mutation_p.S600L	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	600	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)											0.15625	17.028664	24.232331	10	54	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	140203159	140203159	11947	5	C	T	T	T	403	31	PCDHA5	1	1
PCDHB6	56130	broad.mit.edu	37	5	140531256	140531256	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:140531256C>A	uc003lir.2	+	c.1418C>A	c.(1417-1419)GCC>GAC	p.A473D	PCDHB6_uc011dah.1_Missense_Mutation_p.A337D	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	473	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)											0.075269	-5.643816	11.584872	7	86	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	140531256	140531256	11966	5	C	A	A	A	338	26	PCDHB6	2	2
PCDHGA8	9708	broad.mit.edu	37	5	140772816	140772816	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:140772816G>A	uc003lkd.1	+	c.436G>A	c.(436-438)GCG>ACG	p.A146T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.A146T	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	146	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)											0.319444	60.297962	62.384652	23	49	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	140772816	140772816	11980	5	G	A	A	A	494	38	PCDHGA8	1	1
PPARGC1B	133522	broad.mit.edu	37	5	149221870	149221870	+	Nonsense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:149221870C>T	uc003lrc.2	+	c.2746C>T	c.(2746-2748)CGA>TGA	p.R916*	PPARGC1B_uc003lrb.1_Nonsense_Mutation_p.R916*|PPARGC1B_uc003lrd.2_Nonsense_Mutation_p.R877*|PPARGC1B_uc003lrf.2_Nonsense_Mutation_p.R895*|PPARGC1B_uc003lre.1_Nonsense_Mutation_p.R895*	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	916	RRM.				estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription mediator activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)											0.131148	12.860303	20.926083	8	53	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	149221870	149221870	12731	5	C	T	T	T	295	23	PPARGC1B	5	1
NMUR2	56923	broad.mit.edu	37	5	151784153	151784153	+	Silent	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:151784153G>A	uc003luv.2	-	c.522C>T	c.(520-522)TCC>TCT	p.S174S		NM_020167	NP_064552	Q9GZQ4	NMUR2_HUMAN	neuromedin U receptor 2	174	Helical; Name=4; (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|arachidonic acid secretion|calcium ion transport|central nervous system development|elevation of cytosolic calcium ion concentration|regulation of smooth muscle contraction	integral to membrane|plasma membrane	GTP binding|intracellular calcium activated chloride channel activity|neuromedin U receptor activity			ovary(2)	2		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)	Kidney(363;0.000106)|KIRC - Kidney renal clear cell carcinoma(527;0.000672)											0.127907	16.475404	28.071708	11	75	KEEP	---	---	---	---	capture		Silent	SNP	151784153	151784153	10910	5	G	A	A	A	496	39	NMUR2	1	1
MYO10	4651	broad.mit.edu	37	5	16680116	16680116	+	Silent	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:16680116G>A	uc003jft.3	-	c.4482C>T	c.(4480-4482)AAC>AAT	p.N1494N	MYO10_uc011cnb.1_Silent_p.N123N|MYO10_uc011cnc.1_Silent_p.N373N|MYO10_uc011cnd.1_Silent_p.N851N|MYO10_uc011cne.1_Silent_p.N851N|MYO10_uc010itx.2_Silent_p.N1116N	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1494	PH 2.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3														0.09375	1.305641	6.610299	3	29	KEEP	---	---	---	---	capture		Silent	SNP	16680116	16680116	10457	5	G	A	A	A	516	40	MYO10	1	1
CDH9	1007	broad.mit.edu	37	5	26881622	26881622	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:26881622C>A	uc003jgs.1	-	c.1993G>T	c.(1993-1995)GGG>TGG	p.G665W	CDH9_uc011cnv.1_Missense_Mutation_p.G258W	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	665	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)	5						Melanoma(8;187 585 15745 40864 52829)								0.102703	15.370419	44.531824	19	166	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	26881622	26881622	3246	5	C	A	A	A	299	23	CDH9	1	1
HEATR7B2	133558	broad.mit.edu	37	5	41064610	41064610	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:41064610C>A	uc003jmj.3	-	c.424G>T	c.(424-426)GCC>TCC	p.A142S		NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	142							binding			ovary(6)|central_nervous_system(2)	8														0.111111	3.003563	7.042419	3	24	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	41064610	41064610	7318	5	C	A	A	A	338	26	HEATR7B2	2	2
PDE4D	5144	broad.mit.edu	37	5	58271618	58271618	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:58271618G>A	uc003jsa.2	-	c.1879C>T	c.(1879-1881)CCT>TCT	p.P627S	PDE4D_uc003jrx.2_Missense_Mutation_p.P491S|PDE4D_uc003jry.2_Missense_Mutation_p.P325S|PDE4D_uc003jrz.2_Missense_Mutation_p.P563S|PDE4D_uc003jsb.2_Missense_Mutation_p.P566S|PDE4D_uc003jrt.2_Missense_Mutation_p.P325S|PDE4D_uc003jru.2_Missense_Mutation_p.P403S|PDE4D_uc003jrv.2_Missense_Mutation_p.P497S|PDE4D_uc003jrw.2_Missense_Mutation_p.P505S|PDE4D_uc003jrs.2_Missense_Mutation_p.P336S	NM_001104631	NP_001098101	Q08499	PDE4D_HUMAN	phosphodiesterase 4D isoform 1	627					signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)									0.16129	7.852688	11.240425	5	26	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	58271618	58271618	12063	5	G	A	A	A	546	42	PDE4D	2	2
SEMA5A	9037	broad.mit.edu	37	5	9154736	9154736	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:9154736C>T	uc003jek.2	-	c.1345G>A	c.(1345-1347)GAG>AAG	p.E449K		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	449	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2														0.065574	-7.801784	16.103759	8	114	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	9154736	9154736	14523	5	C	T	T	T	377	29	SEMA5A	2	2
LAMA2	3908	broad.mit.edu	37	6	129465145	129465145	+	Missense_Mutation	SNP	A	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:129465145A>G	uc003qbn.2	+	c.739A>G	c.(739-741)AGG>GGG	p.R247G	LAMA2_uc003qbo.2_Missense_Mutation_p.R247G	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	247	Laminin N-terminal.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)										0.133929	31.147593	45.704986	15	97	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	129465145	129465145	8929	6	A	G	G	G	140	11	LAMA2	4	4
MOXD1	26002	broad.mit.edu	37	6	132693821	132693821	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:132693821G>T	uc003qdf.2	-	c.589C>A	c.(589-591)CCA>ACA	p.P197T	MOXD1_uc003qde.2_Missense_Mutation_p.P129T	NM_015529	NP_056344	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1 isoform 2	197	Lumenal (Potential).				catecholamine metabolic process|oxidation-reduction process	endoplasmic reticulum membrane|integral to membrane	copper ion binding|dopamine beta-monooxygenase activity			ovary(1)	1	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)										0.059524	-6.497288	10.558855	5	79	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	132693821	132693821	10112	6	G	T	T	T	559	43	MOXD1	2	2
MAP3K5	4217	broad.mit.edu	37	6	137041635	137041635	+	Missense_Mutation	SNP	T	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:137041635T>A	uc003qhc.2	-	c.541A>T	c.(541-543)ATC>TTC	p.I181F	MAP3K5_uc011edk.1_Missense_Mutation_p.I26F|MAP3K5_uc010kgw.1_Missense_Mutation_p.I181F	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	181					activation of JUN kinase activity|activation of MAPKK activity|apoptosis|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)						1151				0.216667	32.03761	36.487403	13	47	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	137041635	137041635	9636	6	T	A	A	A	663	51	MAP3K5	3	3
MAP3K5	4217	broad.mit.edu	37	6	137041644	137041644	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:137041644C>A	uc003qhc.2	-	c.532G>T	c.(532-534)GCC>TCC	p.A178S	MAP3K5_uc011edk.1_Missense_Mutation_p.A23S|MAP3K5_uc010kgw.1_Missense_Mutation_p.A178S	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	178					activation of JUN kinase activity|activation of MAPKK activity|apoptosis|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)						1151				0.241379	34.320776	37.859844	14	44	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	137041644	137041644	9636	6	C	A	A	A	338	26	MAP3K5	2	2
VARS	7407	broad.mit.edu	37	6	31751989	31751989	+	Splice_Site_SNP	SNP	A	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:31751989A>G	uc003nxe.2	-	c.1671_splice	c.e13+1	p.Q557_splice	VARS_uc011doi.1_Splice_Site_SNP	NM_006295	NP_006286			valyl-tRNA synthetase						translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			ovary(1)	1					L-Valine(DB00161)									0.052023	-22.039304	15.171749	9	164	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	31751989	31751989	17688	6	A	G	G	G	78	6	VARS	5	4
GCM1	8521	broad.mit.edu	37	6	52993300	52993301	+	Nonsense_Mutation	DNP	GG	CT	CT			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:52993300_52993301GG>CT	uc003pbp.2	-	c.1014_1015CC>AG	c.(1012-1017)TACCAG>TAAGAG	p.338_339YQ>*E		NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	338_339					regulation of transcription, DNA-dependent	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)													0.22973	51.337445	56.291579	17	57	KEEP	---	---	---	---	capture		Nonsense_Mutation	DNP	52993300	52993301	6563	6	GG	CT	CT	CT	611	47	GCM1	5	3
FAM83B	222584	broad.mit.edu	37	6	54735136	54735136	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:54735136C>T	uc003pck.2	+	c.92C>T	c.(91-93)GCC>GTC	p.A31V		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	31										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)													0.19084	52.491774	64.200494	25	106	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	54735136	54735136	5860	6	C	T	T	T	338	26	FAM83B	2	2
F13A1	2162	broad.mit.edu	37	6	6182331	6182331	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:6182331G>T	uc003mwv.2	-	c.1349C>A	c.(1348-1350)ACT>AAT	p.T450N	F13A1_uc011dib.1_Missense_Mutation_p.T387N	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	450					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)									0.035294	-13.553824	6.398119	3	82	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	6182331	6182331	5534	6	G	T	T	T	468	36	F13A1	2	2
MOGAT3	346606	broad.mit.edu	37	7	100839574	100839574	+	Silent	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:100839574G>T	uc003uyc.2	-	c.765C>A	c.(763-765)ACC>ACA	p.T255T	MOGAT3_uc010lhr.2_Intron	NM_178176	NP_835470	Q86VF5	MOGT3_HUMAN	monoacylglycerol O-acyltransferase 3	255					glycerol metabolic process|lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity|diacylglycerol O-acyltransferase activity			ovary(2)	2	Lung NSC(181;0.168)|all_lung(186;0.215)													0.16	6.483552	9.236803	4	21	KEEP	---	---	---	---	capture		Silent	SNP	100839574	100839574	10087	7	G	T	T	T	444	35	MOGAT3	2	2
NRCAM	4897	broad.mit.edu	37	7	107823140	107823140	+	Missense_Mutation	SNP	G	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:107823140G>C	uc003vfb.2	-	c.2529C>G	c.(2527-2529)GAC>GAG	p.D843E	NRCAM_uc003vfc.2_Missense_Mutation_p.D827E|NRCAM_uc011kmk.1_Missense_Mutation_p.D838E|NRCAM_uc003vfd.2_Missense_Mutation_p.D819E|NRCAM_uc003vfe.2_Missense_Mutation_p.D819E	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	843	Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5														0.30303	32.237056	33.379974	10	23	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	107823140	107823140	11049	7	G	C	C	C	568	44	NRCAM	3	3
TAS2R16	50833	broad.mit.edu	37	7	122635164	122635164	+	Missense_Mutation	SNP	C	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:122635164C>G	uc003vkl.1	-	c.525G>C	c.(523-525)CAG>CAC	p.Q175H		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	175	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|integral to membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)	1														0.260504	95.928886	102.145051	31	88	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	122635164	122635164	16091	7	C	G	G	G	259	20	TAS2R16	3	3
KIAA1549	57670	broad.mit.edu	37	7	138603645	138603645	+	Missense_Mutation	SNP	C	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:138603645C>G	uc011kql.1	-	c.727G>C	c.(727-729)GTT>CTT	p.V243L	KIAA1549_uc003vuk.3_Missense_Mutation_p.V193L|KIAA1549_uc011kqj.1_Missense_Mutation_p.V243L	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	243						integral to membrane			KIAA1549/BRAF(211)	central_nervous_system(211)|pancreas(1)	212						NSCLC(119;1534 1718 44213 46230 50068)				967				0.209877	47.227976	53.538958	17	64	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	138603645	138603645	8553	7	C	G	G	G	247	19	KIAA1549	3	3
MLL3	58508	broad.mit.edu	37	7	151945190	151945190	+	Missense_Mutation	SNP	T	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:151945190T>A	uc003wla.2	-	c.2329A>T	c.(2329-2331)AGC>TGC	p.S777C		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	777					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			pancreas(12)|ovary(7)|large_intestine(6)|central_nervous_system(4)|urinary_tract(1)|skin(1)	31	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		Colon(68;14 1149 1884 27689 34759)				1780				0.162281	68.620397	93.353911	37	191	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	151945190	151945190	10012	7	T	A	A	A	728	56	MLL3	3	3
CREB5	9586	broad.mit.edu	37	7	28610075	28610075	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:28610075C>A	uc003szq.2	+	c.384C>A	c.(382-384)AAC>AAA	p.N128K	CREB5_uc003szo.2_Missense_Mutation_p.N95K|CREB5_uc003szr.2_Missense_Mutation_p.N121K	NM_182898	NP_878901	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5	128					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0														0.174419	32.044518	40.589455	15	71	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	28610075	28610075	3999	7	C	A	A	A	246	19	CREB5	1	1
NOD1	10392	broad.mit.edu	37	7	30492655	30492655	+	Silent	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:30492655C>T	uc003tav.2	-	c.378G>A	c.(376-378)GTG>GTA	p.V126V	NOD1_uc010kvs.2_Silent_p.V126V	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	126					activation of caspase activity|activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)	1														0.174603	20.684175	26.980312	11	52	KEEP	---	---	---	---	capture		Silent	SNP	30492655	30492655	10919	7	C	T	T	T	366	29	NOD1	2	2
PSPH	5723	broad.mit.edu	37	7	56087408	56087408	+	Missense_Mutation	SNP	C	G	G			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:56087408C>G	uc003trj.2	-	c.247G>C	c.(247-249)GGG>CGG	p.G83R	PSPH_uc003trg.2_Missense_Mutation_p.G54R|PSPH_uc003trh.2_Missense_Mutation_p.G54R|PSPH_uc003tri.2_Missense_Mutation_p.G54R	NM_004577	NP_004568	P78330	SERB_HUMAN	phosphoserine phosphatase	54					L-serine biosynthetic process	cytoplasm	calcium ion binding|magnesium ion binding|phosphoserine phosphatase activity|protein homodimerization activity			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)											0.1	2.504205	7.298025	3	27	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	56087408	56087408	13171	7	C	G	G	G	299	23	PSPH	3	3
DTX2	113878	broad.mit.edu	37	7	76121568	76121568	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:76121568C>A	uc011kgk.1	+	c.734C>A	c.(733-735)GCA>GAA	p.A245E	DTX2_uc003uff.3_Missense_Mutation_p.A336E|DTX2_uc003ufg.3_Missense_Mutation_p.A336E|DTX2_uc003ufh.3_Missense_Mutation_p.A336E|DTX2_uc003ufj.3_Missense_Mutation_p.A336E|DTX2_uc003ufk.3_Missense_Mutation_p.A14E	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	336					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)	1														0.311111	38.031775	39.462591	14	31	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	76121568	76121568	4979	7	C	A	A	A	325	25	DTX2	2	2
HGF	3082	broad.mit.edu	37	7	81386504	81386504	+	Splice_Site_SNP	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:81386504C>T	uc003uhl.2	-	c.482_splice	c.e4+1	p.S161_splice	HGF_uc003uhm.2_Splice_Site_SNP_p.S161_splice|HGF_uc003uhn.1_Splice_Site_SNP_p.S161_splice|HGF_uc003uho.1_Splice_Site_SNP_p.S161_splice|HGF_uc003uhp.2_Splice_Site_SNP_p.S161_splice	NM_000601	NP_000592			hepatocyte growth factor isoform 1						epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4										800				0.263158	36.09756	38.990602	15	42	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	81386504	81386504	7369	7	C	T	T	T	234	18	HGF	5	2
TAF6	6878	broad.mit.edu	37	7	99705129	99705129	+	Missense_Mutation	SNP	G	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:99705129G>C	uc003uth.2	-	c.1945C>G	c.(1945-1947)CCC>GCC	p.P649A	AP4M1_uc003utd.2_Intron|TAF6_uc003utg.2_Missense_Mutation_p.P514A|TAF6_uc003uti.2_Missense_Mutation_p.P592A|TAF6_uc003utk.2_Missense_Mutation_p.P592A|TAF6_uc011kji.1_Missense_Mutation_p.P629A|TAF6_uc003utj.2_Missense_Mutation_p.P582A|TAF6_uc003utl.2_Missense_Mutation_p.P582A|TAF6_uc003utm.2_Missense_Mutation_p.P592A	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha	592					negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|general RNA polymerase II transcription factor activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription initiation factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)													0.174603	58.371846	70.957003	22	104	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	99705129	99705129	16051	7	G	C	C	C	572	44	TAF6	3	3
CSMD3	114788	broad.mit.edu	37	8	113569029	113569029	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:113569029C>A	uc003ynu.2	-	c.4197G>T	c.(4195-4197)GAG>GAT	p.E1399D	CSMD3_uc003yns.2_Missense_Mutation_p.E671D|CSMD3_uc003ynt.2_Missense_Mutation_p.E1359D|CSMD3_uc011lhx.1_Missense_Mutation_p.E1295D	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1399	Extracellular (Potential).|Sushi 7.					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)			0.160494	16.764812	25.642818	13	68	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	113569029	113569029	4087	8	C	A	A	A	415	32	CSMD3	2	2
EXTL3	2137	broad.mit.edu	37	8	28574048	28574048	+	Nonsense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:28574048C>T	uc003xgz.1	+	c.472C>T	c.(472-474)CGA>TGA	p.R158*		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	158	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding				0		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)										0.0625	-3.115834	6.463042	3	45	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	28574048	28574048	5521	8	C	T	T	T	295	23	EXTL3	5	1
MCM4	4173	broad.mit.edu	37	8	48883365	48883365	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:48883365G>T	uc003xqk.1	+	c.1729G>T	c.(1729-1731)GAC>TAC	p.D577Y	MCM4_uc003xql.1_Missense_Mutation_p.D577Y|MCM4_uc011ldi.1_Missense_Mutation_p.D564Y	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	577	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)								376				0.22807	32.445654	36.312395	13	44	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	48883365	48883365	9778	8	G	T	T	T	481	37	MCM4	1	1
RP1	6101	broad.mit.edu	37	8	55540191	55540191	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:55540191G>A	uc003xsd.1	+	c.3749G>A	c.(3748-3750)TGT>TAT	p.C1250Y	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1250					cell projection organization|intracellular signal transduction|phototransduction, visible light|visual perception	cilium axoneme|cytoplasm|microtubule|photoreceptor connecting cilium|photoreceptor outer segment				ovary(4)|pancreas(1)	5		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			Colon(91;1014 1389 7634 14542 40420)								0.080925	-2.7962	28.183748	14	159	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	55540191	55540191	14011	8	G	A	A	A	624	48	RP1	2	2
TGS1	96764	broad.mit.edu	37	8	56695311	56695311	+	Nonsense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:56695311C>T	uc003xsj.3	+	c.106C>T	c.(106-108)CGA>TGA	p.R36*	TGS1_uc010lyh.2_Intron	NM_024831	NP_079107	Q96RS0	TGS1_HUMAN	trimethylguanosine synthase homolog	36					cellular lipid metabolic process|ncRNA metabolic process|regulation of transcription, DNA-dependent|ribonucleoprotein complex import into nucleus|RNA capping|spliceosomal snRNP assembly|transcription, DNA-dependent	Cajal body|cytosol|small nuclear ribonucleoprotein complex	RNA trimethylguanosine synthase activity			ovary(1)|lung(1)|breast(1)	3		all_lung(136;0.119)|all_epithelial(80;0.125)|Lung NSC(129;0.147)	Epithelial(17;0.00027)|all cancers(17;0.00251)			Esophageal Squamous(34;275 823 4842 34837 48447)				978				0.242718	62.526279	68.740817	25	78	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	56695311	56695311	16365	8	C	T	T	T	399	31	TGS1	5	1
MFHAS1	9258	broad.mit.edu	37	8	8748245	8748245	+	Missense_Mutation	SNP	G	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:8748245G>C	uc003wsj.1	-	c.2324C>G	c.(2323-2325)CCC>CGC	p.P775R		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	775											0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		Melanoma(103;1201 2045 17515 28966)								0.075758	-1.380328	10.801281	5	61	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	8748245	8748245	9911	8	G	C	C	C	559	43	MFHAS1	3	3
PAPPA	5069	broad.mit.edu	37	9	118982243	118982243	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:118982243C>A	uc004bjn.2	+	c.1946C>A	c.(1945-1947)CCC>CAC	p.P649H	PAPPA_uc011lxp.1_Missense_Mutation_p.P344H|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	649					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|pancreas(1)	5										611				0.230769	55.841983	62.753573	24	80	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	118982243	118982243	11849	9	C	A	A	A	286	22	PAPPA	2	2
SET	6418	broad.mit.edu	37	9	131456048	131456048	+	Silent	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:131456048C>A	uc004bvt.3	+	c.663C>A	c.(661-663)ATC>ATA	p.I221I	SET_uc004bvu.3_Silent_p.I208I|SET_uc010myg.2_Non-coding_Transcript|SET_uc011mbj.1_Silent_p.I197I	NM_001122821	NP_001116293	Q01105	SET_HUMAN	SET translocation (myeloid leukemia-associated)	221					DNA replication|mRNA metabolic process|negative regulation of histone acetylation|negative regulation of neuron apoptosis|nucleocytoplasmic transport|nucleosome assembly|nucleosome disassembly	cytosol|endoplasmic reticulum|nucleoplasm|perinuclear region of cytoplasm|protein complex	histone binding|protein phosphatase inhibitor activity|protein phosphatase type 2A regulator activity|transcription repressor activity				0		Myeloproliferative disorder(178;0.204)		GBM - Glioblastoma multiforme(294;3.1e-09)						335				0.045045	-16.727648	7.852612	5	106	KEEP	---	---	---	---	capture		Silent	SNP	131456048	131456048	14616	9	C	A	A	A	369	29	SET	2	2
ENTPD2	954	broad.mit.edu	37	9	139944797	139944797	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:139944797C>T	uc004ckw.1	-	c.968G>A	c.(967-969)TGC>TAC	p.C323Y	ENTPD2_uc004ckv.1_5'Flank|ENTPD2_uc004ckx.1_Missense_Mutation_p.C323Y	NM_203468	NP_982293	Q9Y5L3	ENTP2_HUMAN	ectonucleoside triphosphate diphosphohydrolase 2	323	Extracellular (Potential).					integral to membrane	ATP binding				0	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)								OREG0019627	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.045045	-18.335487	6.342955	5	106	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	139944797	139944797	5332	9	C	T	T	T	325	25	ENTPD2	2	2
IFNA4	3441	broad.mit.edu	37	9	21187398	21187398	+	Missense_Mutation	SNP	C	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:21187398C>T	uc003zon.2	-	c.133G>A	c.(133-135)GGA>AGA	p.G45R		NM_021068	NP_066546	P05014	IFNA4_HUMAN	interferon, alpha 4 precursor	45					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(5;2.69e-202)|Lung(24;2.26e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		NSCLC(154;890 1986 23660 27800 51138)								0.212389	59.434654	68.075632	24	89	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	21187398	21187398	7840	9	C	T	T	T	286	22	IFNA4	2	2
NOL6	65083	broad.mit.edu	37	9	33469596	33469596	+	Missense_Mutation	SNP	A	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:33469596A>C	uc003zsz.2	-	c.628T>G	c.(628-630)TTG>GTG	p.L210V	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zta.2_Missense_Mutation_p.L210V|NOL6_uc010mjv.2_Missense_Mutation_p.L210V|NOL6_uc011lob.1_Missense_Mutation_p.L150V|NOL6_uc003ztb.1_Missense_Mutation_p.L210V	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	210					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)										0.030075	-24.109512	8.121733	4	129	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	33469596	33469596	10928	9	A	C	C	C	37	3	NOL6	4	4
IRS4	8471	broad.mit.edu	37	X	107977758	107977758	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:107977758C>A	uc004eoc.2	-	c.1817G>T	c.(1816-1818)CGT>CTT	p.R606L		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	606						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|pancreas(1)	9														0.185185	81.312796	98.875304	35	154	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	107977758	107977758	8146	23	C	A	A	A	247	19	IRS4	1	1
FRMPD4	9758	broad.mit.edu	37	X	12632918	12632918	+	Missense_Mutation	SNP	C	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:12632918C>A	uc004cuz.1	+	c.340C>A	c.(340-342)CTG>ATG	p.L114M	FRMPD4_uc011mij.1_Missense_Mutation_p.L106M	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	114	PDZ.				positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13														0.140187	23.0456	36.427566	15	92	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	12632918	12632918	6309	23	C	A	A	A	363	28	FRMPD4	2	2
MST4	51765	broad.mit.edu	37	X	131197485	131197485	+	Nonsense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:131197485G>T	uc011mux.1	+	c.364G>T	c.(364-366)GAA>TAA	p.E122*	MST4_uc004ewk.1_Nonsense_Mutation_p.E100*|MST4_uc004ewl.1_Nonsense_Mutation_p.E23*|MST4_uc010nrj.1_Nonsense_Mutation_p.E100*|MST4_uc004ewm.1_Nonsense_Mutation_p.E100*	NM_016542	NP_057626	Q9P289	MST4_HUMAN	serine/threonine protein kinase MST4 isoform 1	100	Protein kinase.				cellular component disassembly involved in apoptosis|protein phosphorylation|regulation of apoptosis	cytosol|Golgi membrane	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	6	Acute lymphoblastic leukemia(192;0.000127)									51				0.128	19.304294	36.174395	16	109	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	131197485	131197485	10285	23	G	T	T	T	533	41	MST4	5	2
RENBP	5973	broad.mit.edu	37	X	153209788	153209788	+	Missense_Mutation	SNP	A	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:153209788A>C	uc004fjo.1	-	c.110T>G	c.(109-111)ATG>AGG	p.M37R	RENBP_uc011mzh.1_Missense_Mutation_p.M37R|RENBP_uc011mzi.1_5'Flank	NM_002910	NP_002901	P51606	RENBP_HUMAN	renin binding protein	37					mannose metabolic process|regulation of blood pressure		endopeptidase inhibitor activity|mannose-6-phosphate isomerase activity|N-acylglucosamine 2-epimerase activity			ovary(1)|pancreas(1)	2	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				N-Acetyl-D-glucosamine(DB00141)									0.14433	26.556078	38.460701	14	83	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	153209788	153209788	13694	23	A	C	C	C	104	8	RENBP	4	4
SCML2	10389	broad.mit.edu	37	X	18264732	18264732	+	Missense_Mutation	SNP	T	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:18264732T>A	uc004cyl.2	-	c.1787A>T	c.(1786-1788)CAT>CTT	p.H596L	SCML2_uc004cyk.3_Non-coding_Transcript|SCML2_uc010nfd.1_Missense_Mutation_p.H596L|SCML2_uc011miz.1_Missense_Mutation_p.H530L|SCML2_uc010nfc.2_Missense_Mutation_p.H332L	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	596					anatomical structure morphogenesis|regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					Esophageal Squamous(100;1252 1965 19021 35517)								0.169643	41.956837	53.522894	19	93	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	18264732	18264732	14392	23	T	A	A	A	663	51	SCML2	3	3
MXRA5	25878	broad.mit.edu	37	X	3238914	3238914	+	Silent	SNP	T	C	C			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:3238914T>C	uc004crg.3	-	c.4812A>G	c.(4810-4812)CAA>CAG	p.Q1604Q		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1604						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(23;0.00031)|Lung NSC(23;0.000946)												0.161017	43.452341	56.351533	19	99	KEEP	---	---	---	---	capture		Silent	SNP	3238914	3238914	10397	23	T	C	C	C	777	60	MXRA5	4	4
CXorf22	170063	broad.mit.edu	37	X	35971801	35971801	+	Missense_Mutation	SNP	G	A	A			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:35971801G>A	uc004ddj.2	+	c.1139G>A	c.(1138-1140)GGA>GAA	p.G380E	CXorf22_uc010ngv.2_Non-coding_Transcript	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	380										large_intestine(1)|lung(1)|ovary(1)	3														0.150685	19.276665	27.812758	11	62	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	35971801	35971801	4262	23	G	A	A	A	533	41	CXorf22	2	2
STS	412	broad.mit.edu	37	X	7267979	7267979	+	Missense_Mutation	SNP	G	T	T			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:7267979G>T	uc004cry.3	+	c.1429G>T	c.(1429-1431)GGT>TGT	p.G477C		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	477	Lumenal.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)									0.168	39.010615	52.054009	21	104	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	7267979	7267979	15852	23	G	T	T	T	559	43	STS	2	2
C10orf71	118461	broad.mit.edu	37	10	50534969	50534970	+	In_Frame_Ins	INS	-	ACACACACACAC	ACACACACACAC	rs72337199		TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:50534969_50534970insACACACACACAC	uc010qgp.1	+	c.2068_2069insACACACACACAC	c.(2068-2070)AAC>AACACACACACACAC	p.702_703insTHTH		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	Error:Variant_position_missing_in_Q711Q0_after_alignment											0														0.33			2	4		---	---	---	---	capture_indel		In_Frame_Ins	INS	50534969	50534970	1651	10	-	ACACACACACAC	ACACACACACAC	ACACACACACAC	53	5	C10orf71	5	5
KRTAP5-5	439915	broad.mit.edu	37	11	1651191	1651199	+	In_Frame_Del	DEL	GGCTGTGGA	-	-	rs35089393		TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:1651191_1651199delGGCTGTGGA	uc001lty.2	+	c.121_129delGGCTGTGGA	c.(121-129)GGCTGTGGAdel	p.GCG47del		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	47_49						keratin filament				lung(1)	1		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)										0.50			17	17		---	---	---	---	capture_indel		In_Frame_Del	DEL	1651191	1651199	8886	11	GGCTGTGGA	-	-	-	507	39	KRTAP5-5	5	5
KCTD1	284252	broad.mit.edu	37	18	24128325	24128327	+	In_Frame_Del	DEL	TCC	-	-			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:24128325_24128327delTCC	uc010xbj.1	-	c.174_176delGGA	c.(172-177)GAGGAA>GAA	p.58_59EE>E	KCTD1_uc002kvw.2_Intron|KCTD1_uc010xbk.1_Intron	NM_001142730	NP_001136202	Q719H9	KCTD1_HUMAN	potassium channel tetramerisation domain	Error:Variant_position_missing_in_Q719H9_after_alignment					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)											0.57			4	3		---	---	---	---	capture_indel		In_Frame_Del	DEL	24128325	24128327	8402	18	TCC	-	-	-	806	62	KCTD1	5	5
TNRC18	84629	broad.mit.edu	37	7	5352636	5352638	+	In_Frame_Del	DEL	GAG	-	-			TCGA-49-4506-01	TCGA-49-4506-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:5352636_5352638delGAG	uc003soi.3	-	c.7884_7886delCTC	c.(7882-7887)TCCTCA>TCA	p.2628_2629SS>S		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2628_2629	Ser-rich.						DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)										0.33			2	4		---	---	---	---	capture_indel		In_Frame_Del	DEL	5352636	5352638	16880	7	GAG	-	-	-	585	45	TNRC18	5	5
