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
KRTAP5-1	387264	broad.mit.edu	37	11	1606210	1606210	+	Silent	SNP	G	A	A			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:1606210G>A	uc001ltu.1	-	c.270C>T	c.(268-270)GGC>GGT	p.G90G	LOC338651_uc009ycx.1_Intron|LOC338651_uc001ltt.1_Intron	NM_001005922	NP_001005922	Q6L8H4	KRA51_HUMAN	keratin associated protein 5-1	90	8 X 4 AA repeats of C-C-X-P.					keratin filament					0		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)										0.105263	2.31041	8.165296	4	34	KEEP	---	---	---	---	capture		Silent	SNP	1606210	1606210	8880	11	G	A	A	A	431	34	KRTAP5-1	2	2
OR8K3	219473	broad.mit.edu	37	11	56085955	56085955	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:56085955C>T	uc010rjf.1	+	c.173C>T	c.(172-174)CCT>CTT	p.P58L		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)													0.313131	93.488518	96.565745	31	68	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	56085955	56085955	11655	11	C	T	T	T	312	24	OR8K3	2	2
FRMD8	83786	broad.mit.edu	37	11	65154548	65154548	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:65154548C>A	uc001odu.3	+	c.41C>A	c.(40-42)GCT>GAT	p.A14D	FRMD8_uc009yqj.2_Missense_Mutation_p.A14D|FRMD8_uc010rof.1_Missense_Mutation_p.A14D	NM_031904	NP_114110	Q9BZ67	FRMD8_HUMAN	FERM domain containing 8	14						cytoskeleton	binding			lung(1)|pancreas(1)	2														0.157895	5.213076	7.333389	3	16	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	65154548	65154548	6306	11	C	A	A	A	364	28	FRMD8	2	2
STAB2	55576	broad.mit.edu	37	12	104100638	104100638	+	Silent	SNP	C	G	G			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:104100638C>G	uc001tjw.2	+	c.4065C>G	c.(4063-4065)GTC>GTG	p.V1355V		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1355	Extracellular (Potential).|Laminin EGF-like 1.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(1)	10														0.333333	27.26591	27.930172	9	18	KEEP	---	---	---	---	capture		Silent	SNP	104100638	104100638	15756	12	C	G	G	G	405	32	STAB2	3	3
KIAA0528	9847	broad.mit.edu	37	12	22606881	22606881	+	Silent	SNP	G	C	C			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:22606881G>C	uc010sit.1	-	c.2979C>G	c.(2977-2979)GTC>GTG	p.V993V	KIAA0528_uc010sir.1_Silent_p.V796V|KIAA0528_uc010sis.1_Silent_p.V991V|KIAA0528_uc001rfq.2_Silent_p.V940V|KIAA0528_uc010siu.1_Silent_p.V991V|KIAA0528_uc001rfr.2_Silent_p.V982V	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	940							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4														0.394737	99.027609	99.766311	30	46	KEEP	---	---	---	---	capture		Silent	SNP	22606881	22606881	8489	12	G	C	C	C	418	33	KIAA0528	3	3
APAF1	317	broad.mit.edu	37	12	99109204	99109204	+	Splice_Site_SNP	SNP	G	T	T			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:99109204G>T	uc001tfz.2	+	c.2959_splice	c.e22-1	p.I987_splice	APAF1_uc001tfy.2_Splice_Site_SNP_p.I976_splice|APAF1_uc001tga.2_Splice_Site_SNP_p.I933_splice|APAF1_uc001tgb.2_Splice_Site_SNP_p.I944_splice|APAF1_uc001tgc.2_Intron|APAF1_uc009zto.2_Splice_Site_SNP_p.I353_splice	NM_181861	NP_863651			apoptotic peptidase activating factor 1 isoform						activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)					519				0.085714	0.7971	6.887021	3	32	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	99109204	99109204	765	12	G	T	T	T	429	33	APAF1	5	2
AHNAK2	113146	broad.mit.edu	37	14	105418903	105418903	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:105418903G>C	uc010axc.1	-	c.2885C>G	c.(2884-2886)CCC>CGC	p.P962R	AHNAK2_uc001ypx.2_Missense_Mutation_p.P862R	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	962						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)											0.391304	54.83882	55.31509	18	28	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	105418903	105418903	418	14	G	C	C	C	559	43	AHNAK2	3	3
TUFM	7284	broad.mit.edu	37	16	28856763	28856763	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:28856763C>T	uc002drh.2	-	c.286G>A	c.(286-288)GAG>AAG	p.E96K	SH2B1_uc002dri.2_5'Flank	NM_003321	NP_003312	P49411	EFTU_HUMAN	Tu translation elongation factor, mitochondrial	93						mitochondrial nucleoid	GTP binding|GTPase activity|protein binding|translation elongation factor activity			ovary(1)	1														0.060606	-4.750665	8.559438	4	62	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	28856763	28856763	17326	16	C	T	T	T	403	31	TUFM	1	1
CCDC113	29070	broad.mit.edu	37	16	58301478	58301478	+	Silent	SNP	A	G	G			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:58301478A>G	uc002ene.2	+	c.879A>G	c.(877-879)CTA>CTG	p.L293L	CCDC113_uc010vid.1_Silent_p.L239L	NM_014157	NP_054876	Q9H0I3	CC113_HUMAN	coiled-coil domain containing 113 isoform 1	293	Potential.					protein complex					0														0.071429	-0.478761	12.765421	5	65	KEEP	---	---	---	---	capture		Silent	SNP	58301478	58301478	2870	16	A	G	G	G	171	14	CCDC113	4	4
TRPV1	7442	broad.mit.edu	37	17	3475527	3475527	+	Missense_Mutation	SNP	A	C	C			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:3475527A>C	uc010vro.1	-	c.2153T>G	c.(2152-2154)CTG>CGG	p.L718R	TRPV1_uc010vrp.1_Missense_Mutation_p.L647R|TRPV1_uc010vrq.1_Missense_Mutation_p.L705R|TRPV1_uc010vrr.1_Missense_Mutation_p.L707R|TRPV1_uc010vrs.1_Missense_Mutation_p.L707R|TRPV1_uc010vrt.1_Missense_Mutation_p.L707R|TRPV1_uc010vru.1_Missense_Mutation_p.L707R	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	707	AD (By similarity).|Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	Melanoma(38;962 1762 15789)								0.478261	32.720893	32.730482	11	12	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	3475527	3475527	17146	17	A	C	C	C	91	7	TRPV1	4	4
ABR	29	broad.mit.edu	37	17	995058	995058	+	Silent	SNP	G	C	C			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:995058G>C	uc002fsd.2	-	c.378C>G	c.(376-378)ACC>ACG	p.T126T	ABR_uc002fse.2_Silent_p.T80T|ABR_uc002fsg.2_Silent_p.T89T|ABR_uc002fsh.1_Silent_p.T10T|ABR_uc010cjq.1_Silent_p.T138T	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	126	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		Esophageal Squamous(197;2016 2115 4129 29033 46447)								0.480519	112.066127	112.091779	37	40	KEEP	---	---	---	---	capture		Silent	SNP	995058	995058	100	17	G	C	C	C	444	35	ABR	3	3
ZNF407	55628	broad.mit.edu	37	18	72344029	72344029	+	Nonsense_Mutation	SNP	A	T	T			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:72344029A>T	uc002llw.2	+	c.1054A>T	c.(1054-1056)AGA>TGA	p.R352*	ZNF407_uc010xfc.1_Nonsense_Mutation_p.R352*|ZNF407_uc010dqu.1_Nonsense_Mutation_p.R352*|ZNF407_uc002llu.2_Nonsense_Mutation_p.R351*	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	352					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)										0.457627	87.318075	87.410422	27	32	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	72344029	72344029	18480	18	A	T	T	T	88	7	ZNF407	5	3
RNF115	27246	broad.mit.edu	37	1	145611303	145611303	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:145611303T>C	uc001eoj.2	+	c.64T>C	c.(64-66)TGC>CGC	p.C22R	NBPF10_uc001emp.3_Intron|RNF115_uc001eok.2_5'UTR|RNF115_uc009wiy.2_5'UTR|POLR3C_uc001eog.2_5'Flank|POLR3C_uc001eoh.2_5'Flank|POLR3C_uc001eoi.2_5'Flank|POLR3C_uc009wix.2_5'Flank	NM_014455	NP_055270	Q9Y4L5	RN115_HUMAN	Rabring 7	22					protein autoubiquitination	cytosol	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1														0.4	12.498262	12.585632	4	6	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	145611303	145611303	13907	1	T	C	C	C	715	55	RNF115	4	4
SBF1	6305	broad.mit.edu	37	22	50904394	50904394	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:50904394C>T	uc003blh.2	-	c.1007G>A	c.(1006-1008)AGC>AAC	p.S336N	SBF1_uc011arx.1_5'UTR|SBF1_uc003bli.2_Missense_Mutation_p.S337N	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	336					protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)										0.403509	66.411527	66.876014	23	34	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	50904394	50904394	14339	22	C	T	T	T	364	28	SBF1	2	2
ARHGAP15	55843	broad.mit.edu	37	2	144194513	144194513	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:144194513T>C	uc002tvm.3	+	c.605T>C	c.(604-606)CTG>CCG	p.L202P	ARHGAP15_uc010zbl.1_Missense_Mutation_p.L202P|ARHGAP15_uc002tvn.2_5'UTR	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15	202					regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.151)										0.241379	18.410016	20.179852	7	22	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	144194513	144194513	877	2	T	C	C	C	715	55	ARHGAP15	4	4
TM4SF20	79853	broad.mit.edu	37	2	228243870	228243870	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:228243870G>T	uc002vpb.2	-	c.115C>A	c.(115-117)CAA>AAA	p.Q39K		NM_024795	NP_079071	Q53R12	T4S20_HUMAN	transmembrane 4 L six family member 20	39	Extracellular (Potential).					integral to membrane|plasma membrane					0		Renal(207;0.025)|all_lung(227;0.123)|Esophageal squamous(248;0.23)|all_hematologic(139;0.248)		Epithelial(121;3.8e-11)|all cancers(144;2.57e-08)|Lung(261;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0115)										0.071429	-1.308391	6.640294	3	39	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	228243870	228243870	16499	2	G	T	T	T	611	47	TM4SF20	2	2
THAP4	51078	broad.mit.edu	37	2	242572968	242572968	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:242572968C>T	uc002wbt.2	-	c.604G>A	c.(604-606)GCC>ACC	p.A202T		NM_015963	NP_057047	Q8WY91	THAP4_HUMAN	THAP domain containing 4 isoform 1	202							DNA binding|metal ion binding				0		all_cancers(19;2.09e-34)|all_epithelial(40;2.09e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Ovarian(221;0.069)|Lung NSC(271;0.0886)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.2)		Epithelial(32;2.3e-33)|all cancers(36;8.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.68e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0844)										0.472727	73.843518	73.879071	26	29	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	242572968	242572968	16374	2	C	T	T	T	351	27	THAP4	1	1
CCR1	1230	broad.mit.edu	37	3	46245248	46245248	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:46245248T>C	uc003cph.1	-	c.557A>G	c.(556-558)CAC>CGC	p.H186R	CCR3_uc003cpg.1_Intron	NM_001295	NP_001286	P32246	CCR1_HUMAN	chemokine (C-C motif) receptor 1	186	Extracellular (Potential).				cell adhesion|cell-cell signaling|cytokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	integral to plasma membrane	C-C chemokine receptor activity			skin(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)						20				0.37415	167.387703	169.431852	55	92	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	46245248	46245248	3066	3	T	C	C	C	767	59	CCR1	4	4
RAD54L2	23132	broad.mit.edu	37	3	51679626	51679626	+	Silent	SNP	A	G	G			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:51679626A>G	uc011bdt.1	+	c.2676A>G	c.(2674-2676)CTA>CTG	p.L892L	RAD54L2_uc003dbh.2_Silent_p.L481L|RAD54L2_uc011bdu.1_Silent_p.L586L|RAD54L2_uc003dbj.2_Silent_p.L218L	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	892	Helicase C-terminal.					nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)										0.488372	73.583566	73.588205	21	22	KEEP	---	---	---	---	capture		Silent	SNP	51679626	51679626	13454	3	A	G	G	G	158	13	RAD54L2	4	4
SLIT2	9353	broad.mit.edu	37	4	20618585	20618585	+	Silent	SNP	C	T	T			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:20618585C>T	uc003gpr.1	+	c.3900C>T	c.(3898-3900)AAC>AAT	p.N1300N	SLIT2_uc003gps.1_Silent_p.N1292N	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1300	Laminin G-like.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|initiation of Roundabout signal transduction|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|ovary(3)	7														0.478261	64.944877	64.963885	22	24	KEEP	---	---	---	---	capture		Silent	SNP	20618585	20618585	15238	4	C	T	T	T	246	19	SLIT2	1	1
SLCO4C1	353189	broad.mit.edu	37	5	101599390	101599390	+	Silent	SNP	T	C	C			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:101599390T>C	uc003knm.2	-	c.897A>G	c.(895-897)GAA>GAG	p.E299E		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	299	Extracellular (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)										0.176471	44.290504	54.348111	18	84	KEEP	---	---	---	---	capture		Silent	SNP	101599390	101599390	15227	5	T	C	C	C	829	64	SLCO4C1	4	4
TTC37	9652	broad.mit.edu	37	5	94834211	94834211	+	Silent	SNP	T	C	C			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:94834211T>C	uc003klb.2	-	c.3426A>G	c.(3424-3426)AAA>AAG	p.K1142K		NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	1142							binding			ovary(3)|pancreas(1)	4														0.486486	62.549733	62.555577	18	19	KEEP	---	---	---	---	capture		Silent	SNP	94834211	94834211	17260	5	T	C	C	C	725	56	TTC37	4	4
DNAH11	8701	broad.mit.edu	37	7	21912976	21912976	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:21912976G>T	uc003svc.2	+	c.12073G>T	c.(12073-12075)GTT>TTT	p.V4025F		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4025	AAA 6 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15														0.148148	5.780075	8.991521	4	23	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	21912976	21912976	4781	7	G	T	T	T	572	44	DNAH11	2	2
VWC2	375567	broad.mit.edu	37	7	49951644	49951644	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:49951644G>A	uc003tot.1	+	c.841G>A	c.(841-843)GCA>ACA	p.A281T		NM_198570	NP_940972	Q2TAL6	VWC2_HUMAN	von Willebrand factor C domain containing 2	281					negative regulation of BMP signaling pathway|positive regulation of neuron differentiation	basement membrane|extracellular space					0														0.3375	74.295886	76.166436	27	53	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	49951644	49951644	17814	7	G	A	A	A	598	46	VWC2	2	2
MTMR7	9108	broad.mit.edu	37	8	17218660	17218660	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:17218660T>C	uc003wxm.2	-	c.434A>G	c.(433-435)TAC>TGC	p.Y145C		NM_004686	NP_004677	Q9Y216	MTMR7_HUMAN	myotubularin related protein 7	145	Myotubularin phosphatase.						protein tyrosine phosphatase activity				0				Colorectal(111;0.112)										0.515625	114.772561	114.786088	33	31	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	17218660	17218660	10341	8	T	C	C	C	741	57	MTMR7	4	4
PRKDC	5591	broad.mit.edu	37	8	48817536	48817536	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:48817536C>A	uc003xqi.2	-	c.2935G>T	c.(2935-2937)GTG>TTG	p.V979L	PRKDC_uc003xqj.2_Missense_Mutation_p.V979L|PRKDC_uc011ldh.1_Missense_Mutation_p.V979L	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	979					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of gene-specific transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				Esophageal Squamous(79;1091 1253 12329 31680 40677)				1566				0.095238	2.962232	13.269328	6	57	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	48817536	48817536	12964	8	C	A	A	A	234	18	PRKDC	2	2
MUSK	4593	broad.mit.edu	37	9	113445034	113445034	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:113445034T>C	uc004bey.2	+	c.160T>C	c.(160-162)TAC>CAC	p.Y54H	MUSK_uc004bex.2_Missense_Mutation_p.Y54H	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	54	Ig-like 1.|Extracellular (Potential).				protein phosphorylation	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			ovary(2)|lung(2)|central_nervous_system(1)	5										297				0.443396	157.20772	157.503771	47	59	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	113445034	113445034	10383	9	T	C	C	C	689	53	MUSK	4	4
ZNF157	7712	broad.mit.edu	37	X	47271877	47271877	+	Silent	SNP	A	G	G			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:47271877A>G	uc004dhr.1	+	c.405A>G	c.(403-405)GAA>GAG	p.E135E		NM_003446	NP_003437	P51786	ZN157_HUMAN	zinc finger protein 157	135					negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0														0.066667	-2.311351	6.449825	3	42	KEEP	---	---	---	---	capture		Silent	SNP	47271877	47271877	18328	23	A	G	G	G	50	4	ZNF157	4	4
DNHD1	144132	broad.mit.edu	37	11	6567895	6567896	+	In_Frame_Ins	INS	-	TGCCCTACTGCA	TGCCCTACTGCA	rs35369957		TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:6567895_6567896insTGCCCTACTGCA	uc001mdw.3	+	c.5726_5727insTGCCCTACTGCA	c.(5725-5727)GCT>GCTGCCCTACTGCAT	p.1909_1910insALLH	DNHD1_uc001mds.1_3'UTR	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	1909_1910					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)										0.50			3	3		---	---	---	---	capture_indel		In_Frame_Ins	INS	6567895	6567896	4851	11	-	TGCCCTACTGCA	TGCCCTACTGCA	TGCCCTACTGCA	364	28	DNHD1	5	5
UBXN11	91544	broad.mit.edu	37	1	26608878	26608883	+	In_Frame_Del	DEL	CCGGGA	-	-	rs1134581;rs1134580		TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:26608878_26608883delCCGGGA	uc001blw.2	-	c.1470_1475delTCCCGG	c.(1468-1476)GGTCCCGGC>GGC	p.490_492GPG>G	UBXN11_uc001blz.1_In_Frame_Del_p.457_459GPG>G|UBXN11_uc001blv.2_In_Frame_Del_p.452_454GPG>G|UBXN11_uc001bly.2_In_Frame_Del_p.370_372GPG>G|UBXN11_uc001blx.2_In_Frame_Del_p.248_250GPG>G|UBXN11_uc001bma.2_In_Frame_Del_p.457_459GPG>G|UBXN11_uc001bmb.1_In_Frame_Del_p.490_492GPG>G	NM_183008	NP_892120	Q5T124	UBX11_HUMAN	socius isoform 2	490_492	Pro-rich.|3 X 8 AA tandem repeats of P-G-P-G-P-G-P- S.|1.		Missing.|Missing.			cytoplasm|cytoskeleton				ovary(1)	1														0.36			21	37		---	---	---	---	capture_indel		In_Frame_Del	DEL	26608878	26608883	17471	1	CCGGGA	-	-	-	338	26	UBXN11	5	5
SH3TC1	54436	broad.mit.edu	37	4	8229060	8229061	+	Frame_Shift_Ins	INS	-	G	G			TCGA-17-Z004-01	TCGA-17-Z004-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:8229060_8229061insG	uc003gkv.3	+	c.1639_1640insG	c.(1639-1641)CGGfs	p.R547fs	SH3TC1_uc003gkw.3_Frame_Shift_Ins_p.R471fs|SH3TC1_uc003gkx.3_Non-coding_Transcript|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	547							binding			large_intestine(2)|pancreas(1)	3						NSCLC(145;2298 2623 35616 37297)								0.33			2	4		---	---	---	---	capture_indel		Frame_Shift_Ins	INS	8229060	8229061	14753	4	-	G	G	G	295	23	SH3TC1	5	5
