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
C10orf79	80217	broad.mit.edu	36	10	105942022	105942022	+	Missense_Mutation	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr10:105942022C>T	uc001kxw.1	-	c.1471G>A	c.(1471-1473)GTT>ATT	p.V491I	C10orf79_uc001kxx.2_Missense_Mutation_p.V492I	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	491	WD 8.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)										0.2	22.618524	26.807388	10	40	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	105942022	105942022	1655	10	C	T	T	20	20	C10orf79	T	2	2
ZMYND11	10771	broad.mit.edu	36	10	282746	282746	+	Missense_Mutation	SNP	A	G	G			TCGA-06-1084-01	TCGA-06-1084-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr10:282746A>G	uc009xhg.1	+	c.940A>G	c.(940-942)AAC>GAC	p.N314D	ZMYND11_uc001ifj.1_Missense_Mutation_p.N291D|ZMYND11_uc001ifk.1_Missense_Mutation_p.N330D|ZMYND11_uc001ifl.1_Missense_Mutation_p.N291D|ZMYND11_uc009xhf.1_Missense_Mutation_p.N291D|ZMYND11_uc001ifm.1_Missense_Mutation_p.N277D|ZMYND11_uc001ifn.1_Missense_Mutation_p.N277D|ZMYND11_uc009xhh.1_Missense_Mutation_p.N205D	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	291	PWWP.				cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)										0.178161	186.753879	237.681909	93	429	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	282746	282746	18297	10	A	G	G	5	5	ZMYND11	G	4	4
PTEN	5728	broad.mit.edu	36	10	89643816	89643816	+	Missense_Mutation	SNP	T	A	A			TCGA-06-1084-01	TCGA-06-1084-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr10:89643816T>A	uc001kfb.1	+	c.134T>A	c.(133-135)GTA>GAA	p.V45E		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	45	Phosphatase tensin-type.				apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of focal adhesion assembly|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of cyclin-dependent protein kinase activity|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.0?(12)|p.Y27_N212>Y(2)|p.V45fs*10(1)|p.G44fs*11(1)|p.G44fs*8(1)		endometrium(831)|central_nervous_system(654)|skin(119)|haematopoietic_and_lymphoid_tissue(101)|prostate(97)|large_intestine(90)|breast(67)|lung(63)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(21)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(12)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2308		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)				31		264	TCGA GBM(2;<1E-8)|TSP Lung(26;0.18)			0.16568	56.294016	74.215614	28	141	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	89643816	89643816	13192	10	T	A	A	57	57	PTEN	A	4	4
E2F8	79733	broad.mit.edu	36	11	19212940	19212940	+	Missense_Mutation	SNP	G	C	C			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:19212940G>C	uc001mpm.1	-	c.693C>G	c.(691-693)ATC>ATG	p.I231M	E2F8_uc009yhv.1_Non-coding_Transcript|E2F8_uc001mpn.2_Missense_Mutation_p.I231M	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	231					cell cycle|regulation of transcription, DNA-dependent	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity				0														0.279412	55.097756	58.072085	19	49	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	19212940	19212940	5059	11	G	C	C	45	45	E2F8	C	3	3
ART1	417	broad.mit.edu	36	11	3637074	3637074	+	Missense_Mutation	SNP	G	T	T			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:3637074G>T	uc001lye.1	+	c.55G>T	c.(55-57)GCA>TCA	p.A19S	ART1_uc009yeb.1_Missense_Mutation_p.A19S	NM_004314	NP_004305	P52961	NAR1_HUMAN	ADP-ribosyltransferase 1	19					protein ADP-ribosylation	anchored to membrane|integral to plasma membrane|sarcoplasmic reticulum membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity				0		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0351)|LUSC - Lung squamous cell carcinoma(625;0.195)	Becaplermin(DB00102)									0.114286	14.422827	29.824681	12	93	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	3637074	3637074	1015	11	G	T	T	34	34	ART1	T	3	3
MS4A1	931	broad.mit.edu	36	11	59988368	59988368	+	Missense_Mutation	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:59988368C>T	uc001npp.1	+	c.311C>T	c.(310-312)ACG>ATG	p.T104M	MS4A1_uc001npq.1_Missense_Mutation_p.T104M|MS4A1_uc009ymz.1_Missense_Mutation_p.T104M|MS4A1_uc009yna.1_Missense_Mutation_p.T104M	NM_152866	NP_690605	P11836	CD20_HUMAN	membrane-spanning 4-domains, subfamily A, member	104	Helical; (Potential).				B cell activation|immune response	integral to plasma membrane				ovary(3)	3					Ibritumomab(DB00078)|Rituximab(DB00073)|Tositumomab(DB00081)									0.170984	132.311961	171.827685	66	320	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	59988368	59988368	10247	11	C	T	T	19	19	MS4A1	T	1	1
KSR2	283455	broad.mit.edu	36	12	116407831	116407831	+	Silent	SNP	G	A	A			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:116407831G>A	uc001two.2	-	c.2181C>T	c.(2179-2181)ATC>ATT	p.I727I		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	756	Protein kinase.				intracellular signal transduction|protein phosphorylation	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(7)|central_nervous_system(2)|large_intestine(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)									623				0.163677	141.791401	189.721667	73	373	GG		KEEP	---	---	---	---	capture			Silent	SNP	116407831	116407831	8905	12	G	A	A	37	37	KSR2	A	1	1
ACADS	35	broad.mit.edu	36	12	119649299	119649299	+	Missense_Mutation	SNP	G	C	C			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:119649299G>C	uc001tza.2	+	c.134G>C	c.(133-135)TGC>TCC	p.C45S		NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	45						mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)									0.149398	238.152914	336.017518	124	706	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	119649299	119649299	115	12	G	C	C	46	46	ACADS	C	3	3
HNF1A	6927	broad.mit.edu	36	12	119918882	119918882	+	Silent	SNP	C	G	G			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:119918882C>G	uc001tzg.1	+	c.1263C>G	c.(1261-1263)TCC>TCG	p.S421S	HNF1A_uc001tze.1_Silent_p.S421S|HNF1A_uc001tzf.2_Silent_p.S421S	NM_000545	NP_000536	P20823	HNF1A_HUMAN	transcription factor 1, hepatic	421					glucose homeostasis|glucose import|insulin secretion|positive regulation of gene-specific transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|nucleus|protein complex	DNA binding|promoter binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription activator activity			liver(91)|large_intestine(15)|endometrium(6)|breast(2)	114	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)									239				0.285714	44.875267	47.183817	16	40	CC		KEEP	---	---	---	---	capture			Silent	SNP	119918882	119918882	7543	12	C	G	G	22	22	HNF1A	G	3	3
ARHGAP9	64333	broad.mit.edu	36	12	56153690	56153690	+	Missense_Mutation	SNP	G	A	A			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:56153690G>A	uc001sod.1	-	c.2257C>T	c.(2257-2259)CAT>TAT	p.H753Y	ARHGAP9_uc001sny.1_Non-coding_Transcript|ARHGAP9_uc001snz.1_Missense_Mutation_p.H479Y|ARHGAP9_uc001soa.1_Missense_Mutation_p.H352Y|ARHGAP9_uc001sob.1_Intron|ARHGAP9_uc001soc.1_Missense_Mutation_p.H663Y	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	682	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)											0.108108	16.887263	39.423864	16	132	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	56153690	56153690	903	12	G	A	A	47	47	ARHGAP9	A	2	2
TRHDE	29953	broad.mit.edu	36	12	71333073	71333073	+	Missense_Mutation	SNP	C	G	G			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:71333073C>G	uc001sxa.1	+	c.2719C>G	c.(2719-2721)CTG>GTG	p.L907V		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	907	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)	2														0.107143	7.30761	15.883376	6	50	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	71333073	71333073	17023	12	C	G	G	32	32	TRHDE	G	3	3
AMDHD1	144193	broad.mit.edu	36	12	94878349	94878349	+	Silent	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:94878349C>T	uc001tel.1	+	c.630C>T	c.(628-630)AAC>AAT	p.N210N	AMDHD1_uc009zth.1_Silent_p.N101N	NM_152435	NP_689648	Q96NU7	HUTI_HUMAN	amidohydrolase domain containing 1	210					histidine catabolic process to glutamate and formamide	cytosol	imidazolonepropionase activity|metal ion binding			central_nervous_system(1)	1														0.117241	20.470089	41.363701	17	128	CC		KEEP	---	---	---	---	capture			Silent	SNP	94878349	94878349	570	12	C	T	T	18	18	AMDHD1	T	2	2
CHD8	57680	broad.mit.edu	36	14	20923916	20923916	+	Missense_Mutation	SNP	G	A	A			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr14:20923916G>A	uc001was.1	-	c.6605C>T	c.(6604-6606)CCA>CTA	p.P2202L	SUPT16H_uc001wao.1_5'Flank|SUPT16H_uc001wap.1_5'Flank|SUPT16H_uc001waq.1_5'Flank|CHD8_uc001war.1_Missense_Mutation_p.P2098L	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	2481				P -> Q (in Ref. 1; CAH18170).	ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|chromatin assembly or disassembly|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	chromatin|MLL1 complex	ATP binding|beta-catenin binding|chromatin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding|transcription activator activity|transcription repressor activity			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)						886				0.566265	145.618209	145.934044	47	36	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	20923916	20923916	3465	14	G	A	A	47	47	CHD8	A	2	2
GABRA5	2558	broad.mit.edu	36	15	24665525	24665525	+	Missense_Mutation	SNP	A	G	G			TCGA-06-1084-01	TCGA-06-1084-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr15:24665525A>G	uc001zbd.1	+	c.37A>G	c.(37-39)AAA>GAA	p.K13E	GABRB3_uc001zbb.1_Intron	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	13					gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)									0.09434	20.114145	72.690892	30	288	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	24665525	24665525	6415	15	A	G	G	5	5	GABRA5	G	4	4
IGDCC4	57722	broad.mit.edu	36	15	63468687	63468687	+	Missense_Mutation	SNP	T	G	G			TCGA-06-1084-01	TCGA-06-1084-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr15:63468687T>G	uc002aou.1	-	c.2524A>C	c.(2524-2526)ACC>CCC	p.T842P	IGDCC4_uc002aot.1_Missense_Mutation_p.T430P	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	842	Fibronectin type-III 4.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(1)|pancreas(1)	2														0.15	7.770143	14.857493	9	51	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	63468687	63468687	7870	15	T	G	G	59	59	IGDCC4	G	4	4
WDR24	84219	broad.mit.edu	36	16	679229	679229	+	Missense_Mutation	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:679229C>T	uc002ciz.1	-	c.413G>A	c.(412-414)AGT>AAT	p.S138N		NM_032259	NP_115635	Q96S15	WDR24_HUMAN	WD repeat domain 24	200	WD 2.									ovary(1)|central_nervous_system(1)	2		Hepatocellular(780;0.0218)												0.529412	29.876669	29.889534	9	8	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	679229	679229	17854	16	C	T	T	20	20	WDR24	T	2	2
WWOX	51741	broad.mit.edu	36	16	77024051	77024051	+	Silent	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:77024051C>T	uc002ffk.1	+	c.957C>T	c.(955-957)AAC>AAT	p.N319N	WWOX_uc002ffl.1_Intron|WWOX_uc010che.1_Intron	NM_016373	NP_057457	Q9NZC7	WWOX_HUMAN	WW domain-containing oxidoreductase isoform 1	319	Interaction with MAPT (By similarity).				apoptosis|negative regulation of Wnt receptor signaling pathway|oxidation-reduction process|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)										0.302521	187.616776	195.899876	72	166	CC		KEEP	---	---	---	---	capture			Silent	SNP	77024051	77024051	17988	16	C	T	T	19	19	WWOX	T	1	1
GRIN2A	2903	broad.mit.edu	36	16	9766230	9766230	+	Missense_Mutation	SNP	T	C	C			TCGA-06-1084-01	TCGA-06-1084-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr16:9766230T>C	uc002czp.1	-	c.2672A>G	c.(2671-2673)CAG>CGG	p.Q891R	GRIN2A_uc002czq.1_Missense_Mutation_p.Q891R|GRIN2A_uc002czr.2_Missense_Mutation_p.Q891R	NM_000833	NP_000824	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	891	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)					324				0.274887	644.734472	685.09161	243	641	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	9766230	9766230	7058	16	T	C	C	55	55	GRIN2A	C	4	4
TRPV2	51393	broad.mit.edu	36	17	16267552	16267552	+	Missense_Mutation	SNP	G	C	C			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:16267552G>C	uc002gpy.1	+	c.670G>C	c.(670-672)GTG>CTG	p.V224L	TRPV2_uc002gpz.1_Intron	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	224	Cytoplasmic (Potential).|Required for interaction with SLC50A1 (By similarity).|ANK 4.				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)										0.366667	34.217904	34.68653	11	19	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	16267552	16267552	17147	17	G	C	C	48	48	TRPV2	C	3	3
NF1	4763	broad.mit.edu	36	17	26577661	26577661	+	Missense_Mutation	SNP	T	C	C			TCGA-06-1084-01	TCGA-06-1084-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr17:26577661T>C	uc002hgg.1	+	c.2084T>C	c.(2083-2085)CTG>CCG	p.L695P	NF1_uc002hgh.1_Missense_Mutation_p.L695P|NF1_uc002hgi.1_5'UTR|NF1_uc010csn.1_Missense_Mutation_p.L555P	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	695			L -> P (in NF1).		actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(3)		soft_tissue(155)|central_nervous_system(56)|large_intestine(27)|lung(19)|haematopoietic_and_lymphoid_tissue(13)|ovary(12)|autonomic_ganglia(7)|skin(3)|stomach(2)|breast(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	300		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)						847	TCGA GBM(6;<1E-8)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			0.380952	431.900308	436.60123	144	234	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	26577661	26577661	10756	17	T	C	C	55	55	NF1	C	4	4
PPAP2C	8612	broad.mit.edu	36	19	233182	233182	+	Silent	SNP	G	A	A			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:233182G>A	uc002loh.1	-	c.732C>T	c.(730-732)AGC>AGT	p.S244S	PPAP2C_uc002loi.1_Silent_p.S223S|PPAP2C_uc002loj.1_Silent_p.S167S	NM_177543	NP_803545	O43688	LPP2_HUMAN	phosphatidic acid phosphatase type 2C isoform 3	223					sphingolipid metabolic process	integral to membrane|plasma membrane	phosphatidate phosphatase activity|phosphoprotein phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)										0.512821	124.208069	124.219731	40	38	GG		KEEP	---	---	---	---	capture			Silent	SNP	233182	233182	12722	19	G	A	A	38	38	PPAP2C	A	1	1
CATSPERG	57828	broad.mit.edu	36	19	43544238	43544238	+	Missense_Mutation	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:43544238C>T	uc002oih.2	+	c.1991C>T	c.(1990-1992)CCG>CTG	p.P664L	CATSPERG_uc002oig.2_Missense_Mutation_p.P624L|CATSPERG_uc002oif.2_Missense_Mutation_p.P304L|CATSPERG_uc010efw.1_Non-coding_Transcript	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	hypothetical protein LOC57828	664	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)	1														0.333333	8.994996	9.290708	4	8	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	43544238	43544238	2811	19	C	T	T	23	23	CATSPERG	T	1	1
MAP3K10	4294	broad.mit.edu	36	19	45412859	45412859	+	Silent	SNP	C	G	G			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:45412859C>G	uc002ona.1	+	c.2685C>G	c.(2683-2685)CGC>CGG	p.R895R	MAP3K10_uc002onb.1_Silent_p.R284R	NM_002446	NP_002437	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase	895					activation of JUN kinase activity|induction of apoptosis|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|protein homodimerization activity			ovary(2)|lung(2)|skin(1)|pancreas(1)	6									p.R895R(TEN-Tumor)	92				1	12.164172	12.103313	4	0	CC		KEEP	---	---	---	---	capture			Silent	SNP	45412859	45412859	9627	19	C	G	G	28	28	MAP3K10	G	3	3
AXL	558	broad.mit.edu	36	19	46441430	46441430	+	Missense_Mutation	SNP	T	A	A			TCGA-06-1084-01	TCGA-06-1084-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr19:46441430T>A	uc010ehj.1	+	c.1515T>A	c.(1513-1515)AGT>AGA	p.S505R	AXL_uc010ehi.1_Missense_Mutation_p.S505R|AXL_uc010ehk.1_Missense_Mutation_p.S496R	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	505	Cytoplasmic (Potential).				protein phosphorylation	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)|stomach(1)|central_nervous_system(1)	8										318				0.123529	10.536357	34.166285	21	149	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	46441430	46441430	1259	19	T	A	A	58	58	AXL	A	4	4
MUC16	94025	broad.mit.edu	36	19	8932532	8932532	+	Missense_Mutation	SNP	A	T	T			TCGA-06-1084-01	TCGA-06-1084-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr19:8932532A>T	uc002mkp.1	-	c.15914T>A	c.(15913-15915)TTC>TAC	p.F5305Y		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5307	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			ovary(15)|large_intestine(1)|pancreas(1)|breast(1)|skin(1)	19														0.169951	125.941716	167.790461	69	337	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	8932532	8932532	10367	19	A	T	T	9	9	MUC16	T	4	4
OR6Y1	391112	broad.mit.edu	36	1	156783865	156783865	+	Missense_Mutation	SNP	C	G	G			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:156783865C>G	uc001fsq.1	-	c.655G>C	c.(655-657)GTG>CTG	p.V219L		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	219	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)													0.26875	113.957829	121.678788	43	117	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	156783865	156783865	11624	1	C	G	G	17	17	OR6Y1	G	3	3
SPTA1	6708	broad.mit.edu	36	1	156905931	156905931	+	Missense_Mutation	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:156905931C>T	uc001fst.1	-	c.1724G>A	c.(1723-1725)CGT>CAT	p.R575H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	575	Spectrin 6.				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)													0.225914	161.466384	182.22103	68	233	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	156905931	156905931	15630	1	C	T	T	19	19	SPTA1	T	1	1
IFI16	3428	broad.mit.edu	36	1	157253114	157253114	+	Missense_Mutation	SNP	G	C	C			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:157253114G>C	uc001ftg.1	+	c.549G>C	c.(547-549)GAG>GAC	p.E183D	IFI16_uc001fti.2_Missense_Mutation_p.E183D|IFI16_uc001ftf.1_Missense_Mutation_p.E183D	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	183					cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nucleolus|nucleoplasm	double-stranded DNA binding|transcription repressor activity			ovary(1)	1	all_hematologic(112;0.0429)													0.151261	64.637545	92.371821	36	202	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	157253114	157253114	7812	1	G	C	C	35	35	IFI16	C	3	3
ZNF337	26152	broad.mit.edu	36	20	25603801	25603801	+	Missense_Mutation	SNP	G	A	A			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:25603801G>A	uc002wva.1	-	c.2123C>T	c.(2122-2124)ACA>ATA	p.T708I	ZNF337_uc002wvb.1_Missense_Mutation_p.T708I|ZNF337_uc002wvc.1_Missense_Mutation_p.T708I	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	708					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0														0.139037	73.239868	120.364539	52	322	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	25603801	25603801	18445	20	G	A	A	48	48	ZNF337	A	2	2
SLC5A3	6526	broad.mit.edu	36	21	34389851	34389851	+	Missense_Mutation	SNP	G	A	A			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr21:34389851G>A	uc002yto.1	+	c.484G>A	c.(484-486)GTC>ATC	p.V162I	MRPS6_uc002ytp.2_Intron|SLC5A3_uc002ytq.2_Missense_Mutation_p.V162I	NM_006933	NP_008864	P53794	SC5A3_HUMAN	solute carrier family 5 (inositol transporters),	162	Helical; (Potential).					integral to plasma membrane	myo-inositol:sodium symporter activity			ovary(2)	2														0.166667	99.699888	132.578239	52	260	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	34389851	34389851	15163	21	G	A	A	48	48	SLC5A3	A	2	2
RANBP1	5902	broad.mit.edu	36	22	18489837	18489838	+	Missense_Mutation	DNP	AG	CT	CT			TCGA-06-1084-01	TCGA-06-1084-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:18489837_18489838AG>CT	uc002zro.1	+	c.203_204AG>CT	c.(202-204)AAG>ACT	p.K68T	RANBP1_uc002zrp.2_Missense_Mutation_p.K68T	NM_002882	NP_002873	P43487	RANG_HUMAN	RAN binding protein 1	68	RanBD1.				intracellular transport|signal transduction|viral reproduction	nuclear envelope	GDP-dissociation inhibitor activity|GTPase activator activity|Ran GTPase binding			breast(1)	1	Colorectal(54;0.0993)													0.212766	13.712071	17.312415	10	37	AA		KEEP	---	---	---	---	capture			Missense_Mutation	DNP	18489837	18489838	13485	22	AG	CT	CT	3	3	RANBP1	CT	4	4
SAP130	79595	broad.mit.edu	36	2	128473889	128473889	+	Missense_Mutation	SNP	C	A	A			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:128473889C>A	uc010fmd.1	-	c.1187G>T	c.(1186-1188)GGA>GTA	p.G396V	SAP130_uc002tpn.1_Missense_Mutation_p.G157V|SAP130_uc002tpo.1_Missense_Mutation_p.G141V|SAP130_uc002tpp.1_Missense_Mutation_p.G396V|SAP130_uc002tpq.1_Missense_Mutation_p.G369V	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa	396					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)										0.275081	215.645255	229.723417	85	224	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	128473889	128473889	14311	2	C	A	A	30	30	SAP130	A	3	3
TTN	7273	broad.mit.edu	36	2	179301976	179301976	+	Missense_Mutation	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:179301976C>T	uc002umr.1	-	c.15302G>A	c.(15301-15303)AGT>AAT	p.S5101N	TTN_uc002ums.1_Intron|TTN_uc010frc.1_Intron|TTN_uc010frd.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S1762N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6028										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				0.133178	82.009037	137.821858	57	371	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	179301976	179301976	17290	2	C	T	T	20	20	TTN	T	2	2
SUMO1	7341	broad.mit.edu	36	2	202793027	202793027	+	Missense_Mutation	SNP	T	G	G			TCGA-06-1084-01	TCGA-06-1084-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr2:202793027T>G	uc002uyz.1	-	c.60A>C	c.(58-60)GAA>GAC	p.E20D	SUMO1_uc002uza.1_Intron	NM_001005781	NP_003343	P63165	SUMO1_HUMAN	SMT3 suppressor of mif two 3 homolog 1 isoform a	20	Ubiquitin-like.				DNA repair|interferon-gamma-mediated signaling pathway|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein complex assembly|protein sumoylation|regulation of interferon-gamma-mediated signaling pathway|regulation of protein localization	cytoplasm|nuclear membrane|nuclear pore|nuclear speck	ubiquitin protein ligase binding				0														0.160221	60.955661	80.853353	29	152	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	202793027	202793027	15907	2	T	G	G	52	52	SUMO1	G	4	4
ATG9A	79065	broad.mit.edu	36	2	219795131	219795131	+	Missense_Mutation	SNP	A	C	C			TCGA-06-1084-01	TCGA-06-1084-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:219795131A>C	uc002vke.1	-	c.2030T>G	c.(2029-2031)GTG>GGG	p.V677G	ABCB6_uc010fwe.1_5'Flank|ATG9A_uc002vkd.1_Non-coding_Transcript|ATG9A_uc002vkf.1_Missense_Mutation_p.V677G	NM_001077198	NP_076990	Q7Z3C6	ATG9A_HUMAN	APG9 autophagy 9-like 1	677	Cytoplasmic (By similarity).				autophagic vacuole assembly|protein transport	autophagic vacuole membrane|cytoplasmic vesicle|Golgi apparatus|integral to membrane|late endosome membrane				skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.37e-06)|all cancers(144;0.000222)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)										0.4	8.896187	8.983869	4	6	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	219795131	219795131	1121	2	A	C	C	6	6	ATG9A	C	4	4
AGXT	189	broad.mit.edu	36	2	241457117	241457117	+	Silent	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:241457117C>T	uc002waa.2	+	c.162C>T	c.(160-162)TAC>TAT	p.Y54Y		NM_000030	NP_000021	P21549	SPYA_HUMAN	alanine-glyoxylate aminotransferase	54					glyoxylate metabolic process|protein targeting to peroxisome	mitochondrial matrix|peroxisomal matrix	alanine-glyoxylate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|serine-pyruvate transaminase activity				0		all_epithelial(40;1.61e-15)|Breast(86;2.35e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;8.14e-32)|all cancers(36;4.77e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;4.88e-06)|Lung(119;0.000452)|LUSC - Lung squamous cell carcinoma(224;0.00415)|Colorectal(34;0.021)|COAD - Colon adenocarcinoma(134;0.15)	Glycine(DB00145)|L-Alanine(DB00160)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)									0.212121	13.503762	16.03615	7	26	CC		KEEP	---	---	---	---	capture			Silent	SNP	241457117	241457117	407	2	C	T	T	18	18	AGXT	T	2	2
TMEM39A	55254	broad.mit.edu	36	3	120648594	120648594	+	Missense_Mutation	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:120648594C>T	uc003eck.1	-	c.536G>A	c.(535-537)CGA>CAA	p.R179Q	TMEM39A_uc003ecl.1_Missense_Mutation_p.R27Q	NM_018266	NP_060736	Q9NV64	TM39A_HUMAN	transmembrane protein 39A	179						integral to membrane				ovary(1)|breast(1)	2				GBM - Glioblastoma multiforme(114;0.244)										0.270936	138.51075	148.073437	55	148	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	120648594	120648594	16700	3	C	T	T	31	31	TMEM39A	T	1	1
NCBP2	22916	broad.mit.edu	36	3	198148299	198148299	+	Missense_Mutation	SNP	T	C	C			TCGA-06-1084-01	TCGA-06-1084-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr3:198148299T>C	uc003fxd.1	-	c.451A>G	c.(451-453)AAA>GAA	p.K151E	NCBP2_uc003fxb.1_Missense_Mutation_p.K81E|NCBP2_uc003fxc.1_Non-coding_Transcript|NCBP2_uc003fxe.1_Missense_Mutation_p.K98E|NCBP2_uc003fxf.2_3'UTR	NM_007362	NP_031388	P52298	NCBP2_HUMAN	nuclear cap binding protein subunit 2, 20kDa	151					gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of RNA export from nucleus|positive regulation of viral transcription|regulation of translational initiation|snRNA export from nucleus|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm	nucleotide binding|protein binding|RNA 7-methylguanosine cap binding				0	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.42e-24)|all cancers(36;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(49;4.13e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00551)										0.265385	200.562603	213.493675	69	191	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	198148299	198148299	10611	3	T	C	C	64	64	NCBP2	C	4	4
MAML3	55534	broad.mit.edu	36	4	141031492	141031492	+	Missense_Mutation	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:141031492C>T	uc003ihz.1	-	c.548G>A	c.(547-549)GGG>GAG	p.G183E		NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	183					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)									182				0.129032	155.718047	267.913497	108	729	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	141031492	141031492	9590	4	C	T	T	22	22	MAML3	T	2	2
KDR	3791	broad.mit.edu	36	4	55671629	55671629	+	Missense_Mutation	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:55671629C>T	uc003has.1	-	c.1040G>A	c.(1039-1041)CGT>CAT	p.R347H	KDR_uc003hat.1_Missense_Mutation_p.R347H	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor (a type III	347	Ig-like C2-type 4.|Extracellular (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|protein phosphorylation|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(9)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|ovary(2)|kidney(1)	22	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)					1022	TSP Lung(20;0.16)			0.163772	132.017856	175.280029	66	337	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	55671629	55671629	8445	4	C	T	T	19	19	KDR	T	1	1
PDLIM5	10611	broad.mit.edu	36	4	95595554	95595554	+	Missense_Mutation	SNP	C	G	G			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:95595554C>G	uc003htk.1	+	c.92C>G	c.(91-93)TCT>TGT	p.S31C	PDLIM5_uc003htf.1_Missense_Mutation_p.S31C|PDLIM5_uc003htg.1_Missense_Mutation_p.S31C|PDLIM5_uc003hth.1_Missense_Mutation_p.S31C|PDLIM5_uc003hti.1_Missense_Mutation_p.S31C|PDLIM5_uc003htj.1_5'UTR	NM_001011513	NP_001011513	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform b	31	PDZ.				regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)										0.285714	74.32087	78.065445	26	65	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	95595554	95595554	12104	4	C	G	G	32	32	PDLIM5	G	3	3
SLCO6A1	133482	broad.mit.edu	36	5	101862316	101862316	+	Silent	SNP	G	A	A			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:101862316G>A	uc003knn.2	-	c.132C>T	c.(130-132)CCC>CCT	p.P44P	SLCO6A1_uc003kno.2_Silent_p.P44P|SLCO6A1_uc003knp.1_Silent_p.P44P|SLCO6A1_uc003knq.1_Silent_p.P44P	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	44	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|central_nervous_system(1)	4		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)										0.238095	11.966196	13.281397	5	16	GG		KEEP	---	---	---	---	capture			Silent	SNP	101862316	101862316	15229	5	G	A	A	39	39	SLCO6A1	A	1	1
RBM27	54439	broad.mit.edu	36	5	145620534	145620534	+	Missense_Mutation	SNP	C	A	A			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:145620534C>A	uc003lnz.2	+	c.1773C>A	c.(1771-1773)TTC>TTA	p.F591L	RBM27_uc003lny.2_Missense_Mutation_p.F536L	NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	591					mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)											0.206897	74.301417	88.163725	36	138	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	145620534	145620534	13589	5	C	A	A	32	32	RBM27	A	3	3
PDE6A	5145	broad.mit.edu	36	5	149244247	149244247	+	Missense_Mutation	SNP	G	A	A			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:149244247G>A	uc003lrg.2	-	c.2015C>T	c.(2014-2016)GCC>GTC	p.A672V		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A, alpha subunit	672					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)											0.481707	243.009005	243.056866	79	85	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	149244247	149244247	12066	5	G	A	A	42	42	PDE6A	A	2	2
HAVCR2	84868	broad.mit.edu	36	5	156466545	156466545	+	Nonsense_Mutation	SNP	G	T	T			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:156466545G>T	uc003lwk.1	-	c.65C>A	c.(64-66)TCA>TAA	p.S22*	HAVCR2_uc003lwl.2_Nonsense_Mutation_p.S22*	NM_032782	NP_116171	Q8TDQ0	HAVR2_HUMAN	T cell immunoglobulin mucin 3	22	Ig-like V-type.|Extracellular (Potential).					integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)											0.377778	47.95937	48.550769	17	28	GG		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	156466545	156466545	7256	5	G	T	T	45	45	HAVCR2	T	5	3
STC2	8614	broad.mit.edu	36	5	172687795	172687795	+	Missense_Mutation	SNP	G	A	A			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:172687795G>A	uc003mco.1	-	c.8C>T	c.(7-9)GCC>GTC	p.A3V	STC2_uc003mcn.1_5'Flank	NM_003714	NP_003705	O76061	STC2_HUMAN	stanniocalcin 2 precursor	3					cell surface receptor linked signaling pathway|cell-cell signaling	extracellular region	hormone activity			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.223)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)											0.2	15.80591	18.735459	7	28	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	172687795	172687795	15796	5	G	A	A	42	42	STC2	A	2	2
MYLK4	340156	broad.mit.edu	36	6	2630615	2630615	+	Silent	SNP	G	A	A			TCGA-06-1084-01	TCGA-06-1084-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:2630615G>A	uc003mty.2	-	c.459C>T	c.(457-459)AGC>AGT	p.S153S		NM_001012418	NP_001012418	Q86YV6	MYLK4_HUMAN	myosin light chain kinase family, member 4	153	Protein kinase.				protein phosphorylation		ATP binding|protein serine/threonine kinase activity			breast(3)|ovary(1)	4	Ovarian(93;0.0412)	all_hematologic(90;0.0897)								535				0.253264	493.885856	536.22803	194	572	GG		KEEP	---	---	---	---	capture			Silent	SNP	2630615	2630615	10454	6	G	A	A	38	38	MYLK4	A	1	1
HLA-A	3105	broad.mit.edu	36	6	30019178	30019178	+	Silent	SNP	C	T	T	rs41559615	unknown	TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:30019178C>T	uc003non.1	+	c.498C>T	c.(496-498)ATC>ATT	p.I166I	HLA-H_uc010jrp.1_Intron|HCG4P6_uc003nog.1_Non-coding_Transcript|HLA-A_uc003nok.1_Silent_p.I45I|HLA-A_uc003nom.1_Silent_p.I45I|HLA-A_uc003noo.1_Silent_p.I166I|HLA-A_uc010jrr.1_Silent_p.I166I|HLA-A_uc003nol.1_Silent_p.I166I	NM_002116	NP_002107	P04439	1A03_HUMAN	major histocompatibility complex, class I, A	166	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity|protein binding			ovary(1)	1											Multiple Myeloma(9;0.094)			0.75	8.129475	8.352027	3	1	CC		KEEP	---	---	---	---	capture			Silent	SNP	30019178	30019178	7486	6	C	T	T	29	29	HLA-A	T	2	2
PPIL1	51645	broad.mit.edu	36	6	36931651	36931651	+	Silent	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:36931651C>T	uc003omu.1	-	c.417G>A	c.(415-417)GTG>GTA	p.V139V		NM_016059	NP_057143	Q9Y3C6	PPIL1_HUMAN	peptidylprolyl isomerase-like 1	139	PPIase cyclophilin-type.				nuclear mRNA splicing, via spliceosome|protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1														0.143939	55.761976	88.018856	38	226	CC		KEEP	---	---	---	---	capture			Silent	SNP	36931651	36931651	12761	6	C	T	T	29	29	PPIL1	T	2	2
KLHDC10	23008	broad.mit.edu	36	7	129551551	129551551	+	Silent	SNP	C	T	T			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:129551551C>T	uc003vpj.1	+	c.804C>T	c.(802-804)GAC>GAT	p.D268D	KLHDC10_uc003vpk.1_Silent_p.D239D|KLHDC10_uc010lmb.1_Silent_p.D165D	NM_014997	NP_055812	Q6PID8	KLD10_HUMAN	kelch domain containing 10	268	Kelch 3.										0														0.089552	7.994638	42.186453	18	183	CC		KEEP	---	---	---	---	capture			Silent	SNP	129551551	129551551	8667	7	C	T	T	19	19	KLHDC10	T	1	1
SUN3	256979	broad.mit.edu	36	7	48012110	48012110	+	Silent	SNP	A	G	G			TCGA-06-1084-01	TCGA-06-1084-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr7:48012110A>G	uc003tof.1	-	c.558T>C	c.(556-558)GAT>GAC	p.D186D	SUN3_uc010kyq.1_Silent_p.D86D|SUN3_uc003tog.1_Silent_p.D186D	NM_152782	NP_689995	Q8TAQ9	SUN3_HUMAN	Sad1 and UNC84 domain containing 1	186						integral to membrane				central_nervous_system(1)	1														0.117647	8.312515	15.642318	6	45	AA		KEEP	---	---	---	---	capture			Silent	SNP	48012110	48012110	15913	7	A	G	G	4	4	SUN3	G	4	4
PPP1R9A	55607	broad.mit.edu	36	7	94578588	94578588	+	Missense_Mutation	SNP	C	A	A			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:94578588C>A	uc010lfj.1	+	c.1477C>A	c.(1477-1479)CTT>ATT	p.L493I	PPP1R9A_uc003unp.1_Missense_Mutation_p.L493I|PPP1R9A_uc003unq.1_Missense_Mutation_p.L493I	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	493	Interacts with protein phosphatase 1 (By similarity).					cell junction|synapse|synaptosome	actin binding			ovary(2)|skin(1)	3	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)											0.17094	82.175765	106.120075	40	194	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	94578588	94578588	12814	7	C	A	A	20	20	PPP1R9A	A	3	3
GTF2E2	2961	broad.mit.edu	36	8	30591729	30591729	+	Missense_Mutation	SNP	T	C	C			TCGA-06-1084-01	TCGA-06-1084-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr8:30591729T>C	uc003xig.1	-	c.304A>G	c.(304-306)ATT>GTT	p.I102V		NM_002095	NP_002086	P29084	T2EB_HUMAN	general transcription factor IIE, polypeptide 2,	102	TFIIE beta.				regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	transcription factor TFIIE complex	DNA binding|protein binding|RNA polymerase II transcription factor activity				0				KIRC - Kidney renal clear cell carcinoma(542;0.113)|Kidney(114;0.135)										0.188235	38.848795	46.582339	16	69	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	30591729	30591729	7137	8	T	C	C	52	52	GTF2E2	C	4	4
OSGIN2	734	broad.mit.edu	36	8	91002567	91002567	+	Missense_Mutation	SNP	A	T	T			TCGA-06-1084-01	TCGA-06-1084-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr8:91002567A>T	uc003yeh.1	+	c.614A>T	c.(613-615)AAA>ATA	p.K205I	OSGIN2_uc003yeg.1_Missense_Mutation_p.K161I	NM_001126111	NP_001119583	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	161					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)											0.275	27.707803	29.53162	11	29	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	91002567	91002567	11701	8	A	T	T	1	1	OSGIN2	T	4	4
MAGEC2	51438	broad.mit.edu	36	X	141119079	141119079	+	Missense_Mutation	SNP	C	A	A			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:141119079C>A	uc004fbu.1	-	c.361G>T	c.(361-363)GGG>TGG	p.G121W	MAGEC2_uc010nsm.1_Missense_Mutation_p.G121W	NM_016249	NP_057333	Q9UBF1	MAGC2_HUMAN	melanoma antigen family C, 2	121						cytoplasm|nucleus				breast(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)													0.434211	95.661908	95.948486	33	43	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	141119079	141119079	9562	23	C	A	A	24	24	MAGEC2	A	3	3
MAGEA1	4100	broad.mit.edu	36	X	152136047	152136047	+	Missense_Mutation	SNP	T	G	G			TCGA-06-1084-01	TCGA-06-1084-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chrX:152136047T>G	uc004fhf.2	-	c.158A>C	c.(157-159)GAT>GCT	p.D53A	MAGEA1_uc010nub.1_Missense_Mutation_p.D53A	NM_004988	NP_004979	P43355	MAGA1_HUMAN	melanoma antigen family A, 1	53						cytoplasm|plasma membrane				central_nervous_system(7)|ovary(1)|lung(1)|breast(1)	10	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)													0.225	11.442178	14.238871	9	31	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	152136047	152136047	9540	23	T	G	G	50	50	MAGEA1	G	4	4
SRPX	8406	broad.mit.edu	36	X	37898667	37898667	+	Silent	SNP	C	A	A			TCGA-06-1084-01	TCGA-06-1084-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:37898667C>A	uc004ddy.1	-	c.1203G>T	c.(1201-1203)CTG>CTT	p.L401L	SRPX_uc004ddz.1_Silent_p.L381L	NM_006307	NP_006298	P78539	SRPX_HUMAN	sushi-repeat-containing protein, X-linked	401					cell adhesion	cell surface|membrane					0														0.292683	32.582995	34.161267	12	29	CC		KEEP	---	---	---	---	capture			Silent	SNP	37898667	37898667	15678	23	C	A	A	25	25	SRPX	A	3	3
P2RY2	5029	broad.mit.edu	36	11	72623867	72623867	+	Frame_Shift_Del	DEL	C	-	-			TCGA-06-1084-01	TCGA-06-1084-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:72623867_72623867delC	uc001otk.1	+	c.1015_1015delC	c.(1015-1017)CGCfs	p.R339fs	P2RY2_uc001otj.1_Frame_Shift_Del_p.R339fs|P2RY2_uc001otl.1_Frame_Shift_Del_p.R339fs|P2RY2_uc009ytm.1_Frame_Shift_Del_p.R339fs	NM_176072	NP_788086	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	339	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)	2					Suramin(DB04786)									0.44			4	5				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	72623867	72623867	11765	11	C	-	-	27	27	P2RY2	-	5	5
KIAA0182	23199	broad.mit.edu	36	16	84245493	84245494	+	Frame_Shift_Ins	INS	-	C	C			TCGA-06-1084-01	TCGA-06-1084-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:84245493_84245494insC	uc002fix.1	+	c.535_536insC	c.(535-537)ACCfs	p.T179fs	KIAA0182_uc002fiw.1_Frame_Shift_Ins_p.T75fs|KIAA0182_uc002fiy.1_Frame_Shift_Ins_p.T106fs	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	179							protein binding			large_intestine(3)|ovary(1)|skin(1)	5														0.33			2	4				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	84245493	84245494	8466	16	-	C	C	6	6	KIAA0182	C	5	5
SLC16A13	201232	broad.mit.edu	36	17	6882886	6882887	+	Frame_Shift_Ins	INS	-	A	A			TCGA-06-1084-01	TCGA-06-1084-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:6882886_6882887insA	uc002geh.1	+	c.1035_1036insA	c.(1033-1038)TTGCAGfs	p.L345fs	SLC16A13_uc010clu.1_Frame_Shift_Ins_p.L345fs	NM_201566	NP_963860	Q7RTY0	MOT13_HUMAN	monocarboxylate transporter 13	345_346	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(1)	1														0.35			156	291				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	6882886	6882887	14902	17	-	A	A	46	46	SLC16A13	A	5	5
HMHA1	23526	broad.mit.edu	36	19	1036933	1036934	+	Frame_Shift_Ins	INS	-	C	C			TCGA-06-1084-01	TCGA-06-1084-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:1036933_1036934insC	uc002lqz.1	+	c.3339_3340insC	c.(3337-3342)CTGCCCfs	p.L1113fs	HMHA1_uc002lra.1_Frame_Shift_Ins_p.L953fs|HMHA1_uc002lrb.1_Frame_Shift_Ins_p.L996fs|HMHA1_uc002lrc.1_Frame_Shift_Ins_p.L748fs|HMHA1_uc002lrd.1_Frame_Shift_Ins_p.L189fs|HMHA1_uc010dsd.1_Frame_Shift_Ins_p.L219fs	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	1113_1114					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)										0.33			2	4				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	1036933	1036934	7532	19	-	C	C	46	46	HMHA1	C	5	5
FAM83E	54854	broad.mit.edu	36	19	53796203	53796204	+	Frame_Shift_Ins	INS	-	G	G			TCGA-06-1084-01	TCGA-06-1084-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:53796203_53796204insG	uc002pjn.2	-	c.1411_1412insC	c.(1411-1413)CGGfs	p.R471fs		NM_017708	NP_060178	Q2M2I3	FA83E_HUMAN	hypothetical protein LOC54854	471										ovary(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)										0.33			2	4				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	53796203	53796204	5863	19	-	G	G	23	23	FAM83E	G	5	5
RNF185	91445	broad.mit.edu	36	22	29921545	29921548	+	Frame_Shift_Del	DEL	AGCA	-	-			TCGA-06-1084-01	TCGA-06-1084-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:29921545_29921548delAGCA	uc003akb.1	+	c.286_289delAGCA	c.(286-291)AGCACTfs	p.S96fs	RNF185_uc010gwh.1_Non-coding_Transcript|RNF185_uc003ake.1_Intron|RNF185_uc003akc.1_Intron	NM_152267	NP_689480	Q96GF1	RN185_HUMAN	ring finger protein 185 isoform 1	96_97						integral to membrane	zinc ion binding				0														0.33			5	10				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	29921545	29921548	13945	22	AGCA	-	-	7	7	RNF185	-	5	5
KDM3A	55818	broad.mit.edu	36	2	86564776	86564776	+	Frame_Shift_Del	DEL	A	-	-			TCGA-06-1084-01	TCGA-06-1084-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:86564776_86564776delA	uc002sri.2	+	c.3078_3078delA	c.(3076-3078)GGAfs	p.G1026fs		NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	1026					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|oxidation-reduction process|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)	4						NSCLC(96;1150 1523 6936 46253 49736)								0.30			185	422				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	86564776	86564776	8432	2	A	-	-	12	12	KDM3A	-	5	5
