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	i_TCGAscape_Amplification_Peaks	i_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_normal_best_gt	i_failure_reasons	i_judgement	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	dataset	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	context_orig	context65	gene_name	newbase	categ	categ_ignoring_null_categ
KCNK18	338567	broad.mit.edu	36	10	118947189	118947189	+	Missense_Mutation	SNP	G	T	T			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:118947189G>T	uc001ldc.1	+	c.200G>T	c.(199-201)AGA>ATA	p.R67I		NM_181840	NP_862823	Q7Z418	KCNKI_HUMAN	potassium channel, subfamily K, member 18	67						integral to membrane|plasma membrane					0		Colorectal(252;0.19)												0.741935	145.87247	149.158103	46	16	GG		KEEP	---	---	---	---	capture		all cancers(201;0.0211)	Missense_Mutation	SNP	118947189	118947189	8370	10	G	T	T	33	33	KCNK18	T	3	3
MUC2	4583	broad.mit.edu	36	11	1083365	1083365	+	Silent	SNP	T	C	C	rs56021606	unknown	TCGA-14-0787-01	TCGA-14-0787-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr11:1083365T>C	uc001lsx.1	+	c.12270T>C	c.(12268-12270)ACT>ACC	p.T4090T		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4090						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)			Pranlukast(DB01411)									0.173913	9.78646	12.093928	4	19	TT		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Silent	SNP	1083365	1083365	10369	11	T	C	C	53	53	MUC2	C	4	4
OR8J3	81168	broad.mit.edu	36	11	55661024	55661024	+	Silent	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:55661024C>T	uc001nij.1	-	c.747G>A	c.(745-747)ACG>ACA	p.T249T		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00693)													0.379032	142.399272	143.989724	47	77	CC		KEEP	---	---	---	---	capture			Silent	SNP	55661024	55661024	11653	11	C	T	T	23	23	OR8J3	T	1	1
GIF	2694	broad.mit.edu	36	11	59366599	59366599	+	Missense_Mutation	SNP	G	T	T			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:59366599G>T	uc001noi.1	-	c.404C>A	c.(403-405)CCC>CAC	p.P135H		NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	135					cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2						NSCLC(53;1139 1245 16872 38474 42853)								0.29078	110.543602	116.05847	41	100	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	59366599	59366599	6644	11	G	T	T	43	43	GIF	T	3	3
DCHS1	8642	broad.mit.edu	36	11	6603808	6603808	+	Missense_Mutation	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:6603808C>T	uc001mem.1	-	c.6650G>A	c.(6649-6651)CGT>CAT	p.R2217H		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2217	Extracellular (Potential).|Cadherin 21.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)												0.457143	46.696665	46.752399	16	19	CC		KEEP	---	---	---	---	capture		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)	Missense_Mutation	SNP	6603808	6603808	4458	11	C	T	T	19	19	DCHS1	T	1	1
NOX4	50507	broad.mit.edu	36	11	88714986	88714986	+	Missense_Mutation	SNP	C	A	A			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:88714986C>A	uc001pct.1	-	c.1241G>T	c.(1240-1242)GGA>GTA	p.G414V	NOX4_uc001pcx.1_Intron|NOX4_uc001pcu.1_Missense_Mutation_p.G340V|NOX4_uc001pcv.1_Intron|NOX4_uc009yvo.1_Non-coding_Transcript|NOX4_uc009yvp.1_Intron|NOX4_uc001pcw.1_Missense_Mutation_p.G107V|NOX4_uc009yvq.1_Missense_Mutation_p.G390V	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	414	FAD-binding FR-type.|Extracellular (Potential).|Mediates interaction with TLR4.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|oxidation-reduction process|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)												0.132653	15.019421	27.860042	13	85	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	88714986	88714986	10962	11	C	A	A	30	30	NOX4	A	3	3
TMEM119	338773	broad.mit.edu	36	12	107510169	107510169	+	Silent	SNP	A	C	C			TCGA-14-0787-01	TCGA-14-0787-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr12:107510169A>C	uc001tng.1	-	c.120T>G	c.(118-120)GGT>GGG	p.G40G	TMEM119_uc001tnf.1_Non-coding_Transcript|TMEM119_uc009zuz.1_Silent_p.G40G	NM_181724	NP_859075	Q4V9L6	TM119_HUMAN	transmembrane protein 119	40	Extracellular (Potential).					integral to membrane				ovary(1)	1														0.294118	6.900524	7.595692	5	12	AA		KEEP	---	---	---	---	capture			Silent	SNP	107510169	107510169	16563	12	A	C	C	14	14	TMEM119	C	4	4
NR4A1	3164	broad.mit.edu	36	12	50738830	50738830	+	Silent	SNP	C	G	G			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:50738830C>G	uc001rzq.1	+	c.1794C>G	c.(1792-1794)GGC>GGG	p.G598G	NR4A1_uc001rzs.1_Silent_p.G544G|NR4A1_uc001rzt.1_Silent_p.G544G|NR4A1_uc009zmc.1_3'UTR	NM_173157	NP_775180	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	544					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0														0.375	6.727401	6.835144	3	5	CC		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(357;0.0967)	Silent	SNP	50738830	50738830	11037	12	C	G	G	27	27	NR4A1	G	3	3
MYO1A	4640	broad.mit.edu	36	12	55711123	55711123	+	Missense_Mutation	SNP	G	C	C			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:55711123G>C	uc001smw.2	-	c.2452C>G	c.(2452-2454)CAG>GAG	p.Q818E	MYO1A_uc009zpd.1_Missense_Mutation_p.Q818E	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	818					sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|urinary_tract(1)|skin(1)	4														0.410526	122.70213	123.367379	39	56	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	55711123	55711123	10463	12	G	C	C	45	45	MYO1A	C	3	3
SLC26A10	65012	broad.mit.edu	36	12	56301863	56301863	+	Missense_Mutation	SNP	C	A	A			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:56301863C>A	uc001spe.1	+	c.679C>A	c.(679-681)CCC>ACC	p.P227T	SLC26A10_uc001spf.2_Non-coding_Transcript|SLC26A10_uc009zpz.1_5'Flank	NM_133489	NP_597996	Q8NG04	S2610_HUMAN	solute carrier family 26, member 10	227						integral to membrane	antiporter activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(17;0.122)											OREG0021948	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.193548	9.650798	12.357231	6	25	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	56301863	56301863	15012	12	C	A	A	18	18	SLC26A10	A	3	3
SCNN1A	6337	broad.mit.edu	36	12	6334726	6334726	+	Silent	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:6334726G>A	uc001qnw.1	-	c.1293C>T	c.(1291-1293)GGC>GGT	p.G431G	SCNN1A_uc001qnv.1_Silent_p.G72G|SCNN1A_uc001qnx.1_Silent_p.G372G	NM_001038	NP_001029	P37088	SCNNA_HUMAN	sodium channel, nonvoltage-gated 1 alpha	372	Extracellular (By similarity).				excretion|response to stimulus|sensory perception of taste	apical plasma membrane	WW domain binding				0					Amiloride(DB00594)|Triamterene(DB00384)									0.372093	45.990328	46.607708	16	27	GG		KEEP	---	---	---	---	capture			Silent	SNP	6334726	6334726	14409	12	G	A	A	38	38	SCNN1A	A	1	1
NAV3	89795	broad.mit.edu	36	12	77098862	77098862	+	Silent	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:77098862G>A	uc001syp.1	+	c.5598G>A	c.(5596-5598)CCG>CCA	p.P1866P	NAV3_uc001syo.1_Silent_p.P1844P|NAV3_uc009zsf.1_Silent_p.P675P	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1866						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|kidney(1)|pancreas(1)	16										1091				0.407407	64.946129	65.348629	22	32	GG		KEEP	---	---	---	---	capture			Silent	SNP	77098862	77098862	10581	12	G	A	A	40	40	NAV3	A	1	1
RASA3	22821	broad.mit.edu	36	13	113796768	113796768	+	Silent	SNP	C	G	G			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr13:113796768C>G	uc001vui.1	-	c.1464G>C	c.(1462-1464)GCG>GCC	p.A488A	RASA3_uc001vuj.1_Silent_p.A105A	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	488	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(1)|skin(1)	2	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)								4289				0.230769	6.435109	7.287248	3	10	CC		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(86;0.128)		Silent	SNP	113796768	113796768	13522	13	C	G	G	27	27	RASA3	G	3	3
OR4N2	390429	broad.mit.edu	36	14	19366327	19366327	+	Missense_Mutation	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr14:19366327G>A	uc001vwg.1	+	c.880G>A	c.(880-882)GTG>ATG	p.V294M		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	294	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_cancers(95;0.00108)													0.138889	51.388945	83.123195	35	217	GG		KEEP	---	---	---	---	capture	Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)	Missense_Mutation	SNP	19366327	19366327	11487	14	G	A	A	36	36	OR4N2	A	2	2
CLEC14A	161198	broad.mit.edu	36	14	37793596	37793596	+	Missense_Mutation	SNP	G	T	T			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr14:37793596G>T	uc001wum.1	-	c.1383C>A	c.(1381-1383)AAC>AAA	p.N461K		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	461	Cytoplasmic (Potential).					integral to membrane	sugar binding			ovary(3)	3	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)													0.457831	358.606189	358.993478	114	135	GG		KEEP	---	---	---	---	capture	Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00439)	Missense_Mutation	SNP	37793596	37793596	3636	14	G	T	T	48	48	CLEC14A	T	3	3
PYGL	5836	broad.mit.edu	36	14	50457468	50457468	+	Missense_Mutation	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr14:50457468C>T	uc001wyu.1	-	c.728G>A	c.(727-729)CGC>CAC	p.R243H	PYGL_uc001wyv.1_5'UTR|PYGL_uc010anz.1_Missense_Mutation_p.R46H	NM_002863	NP_002854	P06737	PYGL_HUMAN	glycogen phosphorylase, liver	243					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding				0	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)									0.33871	115.518265	118.367447	42	82	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	50457468	50457468	13319	14	C	T	T	27	27	PYGL	T	1	1
SMOC1	64093	broad.mit.edu	36	14	69512239	69512239	+	Missense_Mutation	SNP	C	A	A			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr14:69512239C>A	uc001xlt.1	+	c.433C>A	c.(433-435)CCC>ACC	p.P145T	SMOC1_uc001xls.1_Missense_Mutation_p.P145T	NM_001034852	NP_001030024	Q9H4F8	SMOC1_HUMAN	secreted modular calcium-binding protein 1	145	Thyroglobulin type-1 1.				cell differentiation|eye development|limb development|regulation of osteoblast differentiation|signal transduction	basement membrane	calcium ion binding			pancreas(1)	1														0.43949	200.462988	200.961267	69	88	CC		KEEP	---	---	---	---	capture		all cancers(60;0.00417)|BRCA - Breast invasive adenocarcinoma(234;0.0119)|OV - Ovarian serous cystadenocarcinoma(108;0.028)	Missense_Mutation	SNP	69512239	69512239	15301	14	C	A	A	26	26	SMOC1	A	3	3
C15orf2	23742	broad.mit.edu	36	15	22472629	22472629	+	Silent	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:22472629C>T	uc001ywo.1	+	c.522C>T	c.(520-522)GAC>GAT	p.D174D		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	174					cell differentiation|multicellular organismal development|spermatogenesis			p.D174D(1)		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)								443				0.423077	125.974699	126.511114	44	60	CC		KEEP	---	---	---	---	capture		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)	Silent	SNP	22472629	22472629	1834	15	C	T	T	19	19	C15orf2	T	1	1
SEC14L5	9717	broad.mit.edu	36	16	4986965	4986965	+	Missense_Mutation	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:4986965G>A	uc002cye.2	+	c.889G>A	c.(889-891)GTG>ATG	p.V297M		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	297						integral to membrane|intracellular	transporter activity				0														0.315789	47.929029	49.649719	18	39	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	4986965	4986965	14471	16	G	A	A	44	44	SEC14L5	A	2	2
GPR179	440435	broad.mit.edu	36	17	33739760	33739760	+	Missense_Mutation	SNP	T	C	C			TCGA-14-0787-01	TCGA-14-0787-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr17:33739760T>C	uc002hpz.1	-	c.3218A>G	c.(3217-3219)CAC>CGC	p.H1073R		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1	1073	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)												0.529412	161.7402	161.816687	54	48	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	33739760	33739760	6949	17	T	C	C	59	59	GPR179	C	4	4
HOXB7	3217	broad.mit.edu	36	17	44043040	44043040	+	Silent	SNP	G	C	C			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:44043040G>C	uc002inv.1	-	c.240C>G	c.(238-240)CTC>CTG	p.L80L		NM_004502	NP_004493	P09629	HXB7_HUMAN	homeobox B7	80					regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity				0														0.6	8.825539	8.869347	3	2	GG		KEEP	---	---	---	---	capture			Silent	SNP	44043040	44043040	7598	17	G	C	C	37	37	HOXB7	C	3	3
TYK2	7297	broad.mit.edu	36	19	10328283	10328283	+	Missense_Mutation	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:10328283G>A	uc002moc.2	-	c.2578C>T	c.(2578-2580)CGC>TGC	p.R860C	TYK2_uc010dxe.1_Missense_Mutation_p.R675C	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	860	Protein kinase 1.				intracellular protein kinase cascade|protein phosphorylation|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(2)|lung(2)|breast(1)	5										414				0.804348	124.800126	128.790865	37	9	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)		Missense_Mutation	SNP	10328283	10328283	17367	19	G	A	A	39	39	TYK2	A	1	1
NFIC	4782	broad.mit.edu	36	19	3400019	3400019	+	Silent	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:3400019G>A	uc002lxo.1	+	c.939G>A	c.(937-939)TCG>TCA	p.S313S	NFIC_uc002lxp.1_Silent_p.S322S	NM_205843	NP_995315	P08651	NFIC_HUMAN	nuclear factor I/C isoform 2	322					DNA replication|negative regulation of gene-specific transcription from RNA polymerase II promoter|positive regulation of gene-specific transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Hepatocellular(1079;0.137)												0.157692	71.905721	100.963955	41	219	GG		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (162;7.8e-05)|Epithelial(107;2.94e-108)|BRCA - Breast invasive adenocarcinoma(158;0.00154)|STAD - Stomach adenocarcinoma(1328;0.191)	Silent	SNP	3400019	3400019	10772	19	G	A	A	40	40	NFIC	A	1	1
KIR2DL1	3802	broad.mit.edu	36	19	59976798	59976798	+	Missense_Mutation	SNP	C	T	T	rs687485	by-cluster,by-frequency,by-submitter	TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:59976798C>T	uc010erz.1	+	c.272C>T	c.(271-273)ACG>ATG	p.T91M	KIR2DS4_uc010erv.1_Intron|KIR2DS4_uc010erx.1_Intron|KIR2DS4_uc010esa.1_Intron|KIR3DP1_uc002qgw.1_Intron|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL1_uc010ery.1_Intron|KIR2DL3_uc002qha.1_Intron|KIR2DL1_uc002qhb.1_Missense_Mutation_p.T91M	NM_014218	NP_055033	P43626	KI2L1_HUMAN	killer cell immunoglobulin-like receptor, two	91	Extracellular (Potential).|Ig-like C2-type 1.				immune response|natural killer cell inhibitory signaling pathway	integral to plasma membrane	protein binding|receptor activity				0						GBM(72;624 1217 3963 34152 38303)								0.776119	508.088938	522.170173	156	45	CC		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(193;0.0192)	Missense_Mutation	SNP	59976798	59976798	8628	19	C	T	T	19	19	KIR2DL1	T	1	1
BCL9	607	broad.mit.edu	36	1	145558977	145558977	+	Missense_Mutation	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:145558977C>T	uc001epq.1	+	c.2392C>T	c.(2392-2394)CGG>TGG	p.R798W	NBPF11_uc009wjd.1_Intron|NBPF11_uc009wje.1_Intron	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	798	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			large_intestine(2)|ovary(2)	4	all_hematologic(923;0.115)									202				0.125	6.518383	13.11298	6	42	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	145558977	145558977	1402	1	C	T	T	27	27	BCL9	T	1	1
HMCN1	83872	broad.mit.edu	36	1	184366411	184366411	+	Missense_Mutation	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:184366411C>T	uc001grq.1	+	c.13189C>T	c.(13189-13191)CGG>TGG	p.R4397W	HMCN1_uc001grs.1_5'UTR	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1	4397	Ig-like C2-type 43.				bioluminescence|protein-chromophore linkage|response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)	22														0.307087	108.786765	112.995552	39	88	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	184366411	184366411	7511	1	C	T	T	23	23	HMCN1	T	1	1
DENND1B	163486	broad.mit.edu	36	1	195788859	195788859	+	Missense_Mutation	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:195788859C>T	uc001guf.2	-	c.1156G>A	c.(1156-1158)GAT>AAT	p.D386N	DENND1B_uc001gud.2_Intron|DENND1B_uc009wzb.1_Missense_Mutation_p.D356N|DENND1B_uc001gue.2_Missense_Mutation_p.D356N|DENND1B_uc001guc.1_5'UTR	NM_144977	NP_659414	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 2	386	dDENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0														0.1375	17.772792	27.94091	11	69	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	195788859	195788859	4606	1	C	T	T	31	31	DENND1B	T	1	1
RYR2	6262	broad.mit.edu	36	1	235857844	235857844	+	Missense_Mutation	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:235857844G>A	uc001hyl.1	+	c.6281G>A	c.(6280-6282)GGC>GAC	p.G2094D		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2094	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)												0.415584	89.274228	89.755514	32	45	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(106;0.00606)		Missense_Mutation	SNP	235857844	235857844	14249	1	G	A	A	42	42	RYR2	A	2	2
SF3A3	10946	broad.mit.edu	36	1	38207877	38207877	+	Nonsense_Mutation	SNP	C	A	A			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:38207877C>A	uc001cci.1	-	c.1123G>T	c.(1123-1125)GAG>TAG	p.E375*		NM_006802	NP_006793	Q12874	SF3A3_HUMAN	splicing factor 3a, subunit 3	375					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nuclear speck	nucleic acid binding|protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)												0.330275	99.870315	102.649512	36	73	CC		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	38207877	38207877	14637	1	C	A	A	31	31	SF3A3	A	5	3
CECR2	27443	broad.mit.edu	36	22	16362144	16362144	+	Silent	SNP	C	G	G			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr22:16362144C>G	uc010gqw.1	+	c.555C>G	c.(553-555)TCC>TCG	p.S185S	CECR2_uc010gqv.1_Silent_p.S64S|CECR2_uc002zml.2_Silent_p.S64S|CECR2_uc002zmm.1_Silent_p.S64S	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	227					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)												0.181818	7.384408	9.480675	4	18	CC		KEEP	---	---	---	---	capture		Lung(27;0.146)	Silent	SNP	16362144	16362144	3339	22	C	G	G	23	23	CECR2	G	3	3
APOBEC3A	200315	broad.mit.edu	36	22	37687559	37687559	+	Silent	SNP	C	T	T	rs73419957	by-1000genomes	TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr22:37687559C>T	uc003awn.1	+	c.396C>T	c.(394-396)TAC>TAT	p.Y132Y		NM_145699	NP_663745	P31941	ABC3A_HUMAN	phorbolin 1	132							hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding			ovary(1)	1	Melanoma(58;0.04)													0.785714	107.893792	111.060228	33	9	CC		KEEP	---	---	---	---	capture			Silent	SNP	37687559	37687559	800	22	C	T	T	19	19	APOBEC3A	T	1	1
GTDC1	79712	broad.mit.edu	36	2	144481504	144481504	+	Missense_Mutation	SNP	A	T	T			TCGA-14-0787-01	TCGA-14-0787-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:144481504A>T	uc002tvp.1	-	c.590T>A	c.(589-591)GTT>GAT	p.V197D	GTDC1_uc002tvq.1_Intron|GTDC1_uc002tvr.1_Missense_Mutation_p.V197D|GTDC1_uc010fnn.1_Missense_Mutation_p.V197D|GTDC1_uc002tvs.1_Missense_Mutation_p.V165D|GTDC1_uc010fno.1_Missense_Mutation_p.V68D|GTDC1_uc002tvt.1_Missense_Mutation_p.V197D|GTDC1_uc002tvo.1_Missense_Mutation_p.V197D	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	197					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1														0.324074	92.591338	95.556278	35	73	AA		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(221;0.0914)	Missense_Mutation	SNP	144481504	144481504	7131	2	A	T	T	2	2	GTDC1	T	4	4
ALS2CR11	151254	broad.mit.edu	36	2	202109262	202109262	+	Silent	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:202109262G>A	uc002uyf.1	-	c.1233C>T	c.(1231-1233)GGC>GGT	p.G411G	ALS2CR11_uc002uye.1_Silent_p.G411G|ALS2CR11_uc010fti.1_Intron	NM_152525	NP_689738	Q53TS8	AL2SA_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	411										large_intestine(1)|ovary(1)	2														0.461538	34.093751	34.127523	12	14	GG		KEEP	---	---	---	---	capture			Silent	SNP	202109262	202109262	555	2	G	A	A	42	42	ALS2CR11	A	2	2
ALS2CR11	151254	broad.mit.edu	36	2	202191920	202191920	+	Missense_Mutation	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:202191920G>A	uc002uyf.1	-	c.179C>T	c.(178-180)ACG>ATG	p.T60M	ALS2CR11_uc002uye.1_Missense_Mutation_p.T60M|ALS2CR11_uc010fti.1_Missense_Mutation_p.T60M	NM_152525	NP_689738	Q53TS8	AL2SA_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	60										large_intestine(1)|ovary(1)	2														0.405594	167.528343	168.609241	58	85	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	202191920	202191920	555	2	G	A	A	40	40	ALS2CR11	A	1	1
FAM124B	79843	broad.mit.edu	36	2	224974500	224974500	+	Missense_Mutation	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:224974500G>A	uc002vnx.1	-	c.230C>T	c.(229-231)CCG>CTG	p.P77L	FAM124B_uc002vnw.1_Missense_Mutation_p.P77L	NM_001122779	NP_001116251	Q9H5Z6	F124B_HUMAN	hypothetical protein LOC79843 isoform a	77							protein binding			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)												0.415842	131.439864	132.062271	42	59	GG		KEEP	---	---	---	---	capture		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)	Missense_Mutation	SNP	224974500	224974500	5623	2	G	A	A	39	39	FAM124B	A	1	1
LRRFIP1	9208	broad.mit.edu	36	2	238336883	238336883	+	Silent	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:238336883G>A	uc002vxe.1	+	c.1788G>A	c.(1786-1788)ACG>ACA	p.T596T	LRRFIP1_uc002vxc.1_Intron|LRRFIP1_uc002vxd.1_Silent_p.T572T|LRRFIP1_uc002vxf.1_Silent_p.T540T	NM_004735	NP_004726	Q32MZ4	LRRF1_HUMAN	leucine rich repeat (in FLII) interacting	596					negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|cytoskeleton|nucleus	DNA binding|double-stranded RNA binding|protein binding|transcription repressor activity			breast(3)	3		Breast(86;0.00257)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)												0.346154	52.235253	53.321456	18	34	GG		KEEP	---	---	---	---	capture		Epithelial(121;9.75e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.01e-10)|Kidney(56;4.85e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.31e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000151)|Lung(119;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0325)|COAD - Colon adenocarcinoma(134;0.228)	Silent	SNP	238336883	238336883	9403	2	G	A	A	40	40	LRRFIP1	A	1	1
ANO7	50636	broad.mit.edu	36	2	241791537	241791537	+	Silent	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:241791537C>T	uc002wax.2	+	c.1002C>T	c.(1000-1002)CAC>CAT	p.H334H		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	334	Extracellular (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3														0.45	27.873501	27.916905	9	11	CC		KEEP	---	---	---	---	capture			Silent	SNP	241791537	241791537	710	2	C	T	T	19	19	ANO7	T	1	1
BCL11A	53335	broad.mit.edu	36	2	60542185	60542185	+	Missense_Mutation	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:60542185C>T	uc002sae.1	-	c.1366G>A	c.(1366-1368)GTG>ATG	p.V456M	BCL11A_uc002sab.1_Missense_Mutation_p.V456M|BCL11A_uc002sac.1_Intron|BCL11A_uc002sad.1_Missense_Mutation_p.V304M|BCL11A_uc002saf.1_Missense_Mutation_p.V422M	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	456					protein sumoylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(1)|skin(1)	11										131				0.414634	94.930406	95.452841	34	48	CC		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)		Missense_Mutation	SNP	60542185	60542185	1384	2	C	T	T	18	18	BCL11A	T	2	2
VPS54	51542	broad.mit.edu	36	2	64000613	64000613	+	Missense_Mutation	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:64000613C>T	uc002scq.1	-	c.2072G>A	c.(2071-2073)CGC>CAC	p.R691H	VPS54_uc002scp.1_Missense_Mutation_p.R679H|VPS54_uc002scn.1_5'UTR|VPS54_uc002sco.1_Missense_Mutation_p.R176H|VPS54_uc010fct.1_Missense_Mutation_p.R538H	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	691					protein transport|retrograde transport, endosome to Golgi						0														0.473684	56.048389	56.071186	18	20	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	64000613	64000613	17783	2	C	T	T	27	27	VPS54	T	1	1
BAP1	8314	broad.mit.edu	36	3	52413619	52413619	+	Silent	SNP	A	C	C			TCGA-14-0787-01	TCGA-14-0787-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr3:52413619A>C	uc003ddx.1	-	c.1140T>G	c.(1138-1140)GGT>GGG	p.G380G	BAP1_uc003ddw.1_5'Flank|BAP1_uc010hmg.1_5'Flank|BAP1_uc010hmh.1_Non-coding_Transcript	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	380					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						GBM(101;493 1458 7992 21037 25532)				294				0.391304	13.28147	13.574927	9	14	AA		KEEP	---	---	---	---	capture		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)	Silent	SNP	52413619	52413619	1332	3	A	C	C	6	6	BAP1	C	4	4
USO1	8615	broad.mit.edu	36	4	76941317	76941317	+	Silent	SNP	A	G	G			TCGA-14-0787-01	TCGA-14-0787-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr4:76941317A>G	uc003hiu.1	+	c.1926A>G	c.(1924-1926)AAA>AAG	p.K642K	USO1_uc003hiv.1_Silent_p.K484K|USO1_uc003hiw.1_Silent_p.K477K	NM_003715	NP_003706	O60763	USO1_HUMAN	USO1 homolog, vesicle docking protein	642	Potential.				intracellular protein transport|vesicle fusion with Golgi apparatus	cytosol|Golgi membrane	protein binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3														0.461538	65.448368	65.498428	18	21	AA		KEEP	---	---	---	---	capture	Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)		Silent	SNP	76941317	76941317	17601	4	A	G	G	1	1	USO1	G	4	4
FAT2	2196	broad.mit.edu	36	5	150903072	150903072	+	Silent	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:150903072C>T	uc003lue.2	-	c.7809G>A	c.(7807-7809)CCG>CCA	p.P2603P		NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	2603	Cadherin 23.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)	4		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)												0.41133	525.457679	528.243516	167	239	CC		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Silent	SNP	150903072	150903072	5926	5	C	T	T	23	23	FAT2	T	1	1
HK3	3101	broad.mit.edu	36	5	176247343	176247343	+	Missense_Mutation	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:176247343C>T	uc003mfa.1	-	c.1315G>A	c.(1315-1317)GTC>ATC	p.V439I	HK3_uc003mez.1_5'UTR	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	439	Regulatory.			V -> I (in Ref. 4; AAC50422).	glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|breast(1)	5	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)												0.37037	87.947786	89.136148	30	51	CC		KEEP	---	---	---	---	capture	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Missense_Mutation	SNP	176247343	176247343	7483	5	C	T	T	19	19	HK3	T	1	1
VCAN	1462	broad.mit.edu	36	5	82885029	82885029	+	Missense_Mutation	SNP	G	A	A			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:82885029G>A	uc003kii.2	+	c.9584G>A	c.(9583-9585)CGG>CAG	p.R3195Q	VCAN_uc003kik.2_Missense_Mutation_p.R454Q|VCAN_uc010jau.1_Missense_Mutation_p.R1441Q|VCAN_uc003kij.2_Missense_Mutation_p.R2208Q|VCAN_uc003kil.2_Missense_Mutation_p.R1859Q	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1	3195	C-type lectin.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(3)|lung(2)|central_nervous_system(1)	13		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)												0.114391	39.445202	79.152946	31	240	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)	Missense_Mutation	SNP	82885029	82885029	17703	5	G	A	A	39	39	VCAN	A	1	1
EMID2	136227	broad.mit.edu	36	7	100850035	100850035	+	Silent	SNP	G	C	C			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:100850035G>C	uc010lhy.1	+	c.216G>C	c.(214-216)TCG>TCC	p.S72S	EMID2_uc003uyo.1_Silent_p.S72S	NM_133457	NP_597714	Q96A83	EMID2_HUMAN	EMI domain containing 2	72	EMI.					collagen				ovary(1)	1	Lung NSC(181;0.215)													0.193548	9.369425	11.988026	6	25	GG		KEEP	---	---	---	---	capture			Silent	SNP	100850035	100850035	5284	7	G	C	C	39	39	EMID2	C	3	3
SSPO	23145	broad.mit.edu	36	7	149124665	149124665	+	Missense_Mutation	SNP	G	T	T			TCGA-14-0787-01	TCGA-14-0787-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:149124665G>T	uc010lpk.1	+	c.6728G>T	c.(6727-6729)AGT>ATT	p.S2243I		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin	2243	LDL-receptor class A 8.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)													0.236842	22.159355	24.562065	9	29	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(82;0.00625)		Missense_Mutation	SNP	149124665	149124665	15705	7	G	T	T	36	36	SSPO	T	3	3
CARD11	84433	broad.mit.edu	36	7	2930510	2930510	+	Missense_Mutation	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:2930510C>T	uc003smv.2	-	c.1823G>A	c.(1822-1824)CGC>CAC	p.R608H		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	608					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|central_nervous_system(1)	48		Ovarian(82;0.0115)								1492				0.266055	72.045393	77.424559	29	80	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)	Missense_Mutation	SNP	2930510	2930510	2764	7	C	T	T	27	27	CARD11	T	1	1
WDR67	93594	broad.mit.edu	36	8	124178746	124178746	+	Missense_Mutation	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:124178746C>T	uc003ypp.1	+	c.715C>T	c.(715-717)CAT>TAT	p.H239Y	WDR67_uc003ypo.1_Missense_Mutation_p.H239Y|WDR67_uc003ypq.1_Non-coding_Transcript|WDR67_uc003ypr.2_Non-coding_Transcript	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67	239	WD 4.					intracellular	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)													0.362416	151.286649	153.777489	54	95	CC		KEEP	---	---	---	---	capture	STAD - Stomach adenocarcinoma(47;0.00527)		Missense_Mutation	SNP	124178746	124178746	17891	8	C	T	T	29	29	WDR67	T	2	2
INPP5E	56623	broad.mit.edu	36	9	138447341	138447341	+	Missense_Mutation	SNP	C	G	G			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr9:138447341C>G	uc004cho.1	-	c.1167G>C	c.(1165-1167)GAG>GAC	p.E389D	INPP5E_uc010nbm.1_Missense_Mutation_p.E389D	NM_019892	NP_063945	Q9NRR6	INP5E_HUMAN	inositol polyphosphate-5-phosphatase E	389						cilium axoneme|cytoskeleton|Golgi cisterna membrane	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity			skin(1)	1		Myeloproliferative disorder(178;0.0511)												0.134831	21.43729	32.943896	12	77	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(145;8.36e-06)|Epithelial(140;1.4e-05)	Missense_Mutation	SNP	138447341	138447341	8058	9	C	G	G	20	20	INPP5E	G	3	3
RLIM	51132	broad.mit.edu	36	X	73728136	73728136	+	Missense_Mutation	SNP	C	T	T			TCGA-14-0787-01	TCGA-14-0787-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:73728136C>T	uc004ebv.1	-	c.1739G>A	c.(1738-1740)GGC>GAC	p.G580D	RLIM_uc004ebu.1_5'Flank|RLIM_uc004ebx.1_Missense_Mutation_p.G580D|RLIM_uc004ebw.1_Missense_Mutation_p.G580D	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	580	RING-type.				random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						Esophageal Squamous(169;1899 1923 14997 18818 32118)								0.809524	227.245785	234.766103	68	16	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	73728136	73728136	13867	23	C	T	T	26	26	RLIM	T	2	2
TIAL1	7073	broad.mit.edu	36	10	121331470	121331470	+	Frame_Shift_Del	DEL	T	-	-			TCGA-14-0787-01	TCGA-14-0787-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:121331470_121331470delT	uc001lej.1	-	c.376_376delA	c.(376-378)ACAfs	p.T126fs	TIAL1_uc001leh.1_Frame_Shift_Del_p.T87fs|TIAL1_uc001lei.1_Frame_Shift_Del_p.T109fs|TIAL1_uc001lek.1_5'UTR|TIAL1_uc009xzi.1_5'UTR	NM_001033925	NP_001029097	Q01085	TIAR_HUMAN	TIA-1 related protein isoform 2	109	RRM 2.				apoptosis|defense response|induction of apoptosis|regulation of transcription from RNA polymerase II promoter	lysosome|nucleus|stress granule	nucleotide binding|RNA binding|RNA polymerase II transcription factor activity			ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00239)|BRCA - Breast invasive adenocarcinoma(275;0.0932)										0.83			25	5				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	121331470	121331470	16417	10	T	-	-	57	57	TIAL1	-	5	5
