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
SIPA1	6494	broad.mit.edu	36	11	65165054	65165054	+	Missense_Mutation	SNP	G	C	C			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:65165054G>C	uc001ofb.1	+	c.86G>C	c.(85-87)CGC>CCC	p.R29P	SIPA1_uc009yqo.1_Missense_Mutation_p.R29P|SIPA1_uc009yqp.1_Missense_Mutation_p.R29P|SIPA1_uc001ofd.1_Missense_Mutation_p.R29P|SIPA1_uc009yqq.1_Missense_Mutation_p.R29P	NM_153253	NP_694985	Q96FS4	SIPA1_HUMAN	signal-induced proliferation-associated protein	29					cell proliferation|cytoskeleton organization|intracellular signal transduction|negative regulation of cell adhesion|negative regulation of cell cycle|negative regulation of cell growth	cytosol|endomembrane system|membrane|nucleus|perinuclear region of cytoplasm	Rap GTPase activator activity				0														0.4	6.514364	6.624116	4	6	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	65165054	65165054	14823	11	G	C	C	38	38	SIPA1	C	3	3
HNF1A	6927	broad.mit.edu	36	12	119921558	119921558	+	Missense_Mutation	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:119921558C>T	uc001tzg.1	+	c.1606C>T	c.(1606-1608)CTC>TTC	p.L536F		NM_000545	NP_000536	P20823	HNF1A_HUMAN	transcription factor 1, hepatic	536					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				0.408602	234.959912	236.318621	76	110	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	119921558	119921558	7543	12	C	T	T	24	24	HNF1A	T	2	2
GPR135	64582	broad.mit.edu	36	14	59000331	59000331	+	Missense_Mutation	SNP	T	C	C			TCGA-76-4935-01	TCGA-76-4935-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr14:59000331T>C	uc010apj.1	-	c.1367A>G	c.(1366-1368)GAC>GGC	p.D456G	GPR135_uc001xed.2_Non-coding_Transcript	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	456	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0														0.2	9.002726	11.559309	6	24	TT		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(108;0.134)	Missense_Mutation	SNP	59000331	59000331	6918	14	T	C	C	58	58	GPR135	C	4	4
SPTBN5	51332	broad.mit.edu	36	15	39965458	39965458	+	Silent	SNP	C	A	A			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:39965458C>A	uc001zos.1	-	c.1182G>T	c.(1180-1182)CGG>CGT	p.R394R		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	429	Spectrin 2.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)												0.7	22.228073	22.585097	7	3	CC		KEEP	---	---	---	---	capture		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)	Silent	SNP	39965458	39965458	15636	15	C	A	A	26	26	SPTBN5	A	3	3
OTOA	146183	broad.mit.edu	36	16	21633918	21633918	+	Missense_Mutation	SNP	G	A	A			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:21633918G>A	uc002djh.1	+	c.1432G>A	c.(1432-1434)GTC>ATC	p.V478I	OTOA_uc002dji.1_Missense_Mutation_p.V154I	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	492					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)	1														0.460916	495.848771	496.344648	171	200	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(48;0.0414)	Missense_Mutation	SNP	21633918	21633918	11714	16	G	A	A	40	40	OTOA	A	1	1
HERPUD1	9709	broad.mit.edu	36	16	55528144	55528144	+	Missense_Mutation	SNP	G	C	C			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:55528144G>C	uc002eke.1	+	c.345G>C	c.(343-345)CAG>CAC	p.Q115H	HERPUD1_uc002ekf.1_Missense_Mutation_p.Q114H|HERPUD1_uc002ekg.1_Missense_Mutation_p.Q90H|HERPUD1_uc010cco.1_Missense_Mutation_p.Q176H|HERPUD1_uc010ccp.1_Missense_Mutation_p.Q175H|HERPUD1_uc002ekh.1_5'UTR	NM_014685	NP_055500	Q15011	HERP1_HUMAN	homocysteine-inducible, endoplasmic reticulum	115	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	protein binding				0														0.424581	260.676545	261.563667	76	103	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	55528144	55528144	7346	16	G	C	C	36	36	HERPUD1	C	3	3
RFWD3	55159	broad.mit.edu	36	16	73215447	73215447	+	Silent	SNP	C	G	G			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:73215447C>G	uc002fda.1	-	c.2205G>C	c.(2203-2205)TCG>TCC	p.S735S	RFWD3_uc010cgq.1_Silent_p.S735S	NM_018124	NP_060594	Q6PCD5	RFWD3_HUMAN	ring finger and WD repeat domain 3	735					DNA repair|mitotic cell cycle G1/S transition DNA damage checkpoint|response to ionizing radiation	nucleus	MDM2 binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding				0														0.210526	9.394083	10.863599	4	15	CC		KEEP	---	---	---	---	capture			Silent	SNP	73215447	73215447	13733	16	C	G	G	19	19	RFWD3	G	3	3
MYH13	8735	broad.mit.edu	36	17	10190786	10190786	+	Missense_Mutation	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:10190786C>T	uc002gmk.1	-	c.1199G>A	c.(1198-1200)GGC>GAC	p.G400D		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	400	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)	4														0.397059	76.622993	77.249247	27	41	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	10190786	10190786	10427	17	C	T	T	26	26	MYH13	T	2	2
ANKFY1	51479	broad.mit.edu	36	17	4031317	4031317	+	Missense_Mutation	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:4031317C>T	uc002fxn.1	-	c.2347G>A	c.(2347-2349)GCC>ACC	p.A783T	ANKFY1_uc002fxo.1_Missense_Mutation_p.A742T|ANKFY1_uc002fxp.1_Missense_Mutation_p.A740T|ANKFY1_uc010ckp.1_Missense_Mutation_p.A683T|ANKFY1_uc002fxq.1_Missense_Mutation_p.A741T	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	741	ANK 12.					endosome membrane	protein binding|zinc ion binding			ovary(2)	2														0.306306	87.808043	91.522137	34	77	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	4031317	4031317	629	17	C	T	T	27	27	ANKFY1	T	1	1
USP6	9098	broad.mit.edu	36	17	4977979	4977979	+	Missense_Mutation	SNP	G	A	A			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:4977979G>A	uc002gau.1	+	c.458G>A	c.(457-459)CGG>CAG	p.R153Q	USP6_uc002gav.1_Missense_Mutation_p.R153Q|USP6_uc010ckz.1_5'UTR|USP6_uc002gaw.2_Missense_Mutation_p.R214Q	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	153	Rab-GAP TBC.				protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)	1										464				0.370861	171.866419	174.076783	56	95	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	4977979	4977979	17650	17	G	A	A	39	39	USP6	A	1	1
MAN2B1	4125	broad.mit.edu	36	19	12630127	12630127	+	Missense_Mutation	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:12630127C>T	uc002mub.2	-	c.1141G>A	c.(1141-1143)GCG>ACG	p.A381T	MAN2B1_uc010dyv.1_Missense_Mutation_p.A380T	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	381					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6														0.107692	7.981598	27.822639	14	116	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	12630127	12630127	9599	19	C	T	T	27	27	MAN2B1	T	1	1
NLRP5	126206	broad.mit.edu	36	19	61256905	61256905	+	Missense_Mutation	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:61256905C>T	uc002qmj.1	+	c.3218C>T	c.(3217-3219)ACG>ATG	p.T1073M	NLRP5_uc002qmi.1_Missense_Mutation_p.T1054M	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	1073	LRR 12.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)	6		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)												0.358696	92.646985	94.265587	33	59	CC		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(193;0.0326)	Missense_Mutation	SNP	61256905	61256905	10883	19	C	T	T	19	19	NLRP5	T	1	1
AADACL4	343066	broad.mit.edu	36	1	12648819	12648819	+	Missense_Mutation	SNP	A	G	G			TCGA-76-4935-01	TCGA-76-4935-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:12648819A>G	uc001auf.1	+	c.710A>G	c.(709-711)CAG>CGG	p.Q237R		NM_001013630	NP_001013652	Q5VUY2	ADCL4_HUMAN	arylacetamide deacetylase-like 4	237	Lumenal (Potential).					integral to membrane	carboxylesterase activity				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000937)|all_lung(284;0.00122)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)												0.343284	268.623251	274.435549	92	176	AA		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.81e-07)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0384)	Missense_Mutation	SNP	12648819	12648819	14	1	A	G	G	7	7	AADACL4	G	4	4
BCL9	607	broad.mit.edu	36	1	145558977	145558977	+	Missense_Mutation	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	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				0.1875	10.431733	13.35931	6	26	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	145558977	145558977	1402	1	C	T	T	27	27	BCL9	T	1	1
MTMR11	10903	broad.mit.edu	36	1	148172738	148172738	+	Missense_Mutation	SNP	G	A	A			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:148172738G>A	uc001etm.1	-	c.437C>T	c.(436-438)ACG>ATG	p.T146M	MTMR11_uc001etl.2_Missense_Mutation_p.T190M	NM_181873	NP_870988	A4FU01	MTMRB_HUMAN	myotubularin related protein 11	218	Myotubularin phosphatase.						phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)									238				0.433071	152.904521	153.399785	55	72	GG		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Missense_Mutation	SNP	148172738	148172738	10333	1	G	A	A	40	40	MTMR11	A	1	1
PLXNA2	5362	broad.mit.edu	36	1	206457830	206457830	+	Missense_Mutation	SNP	G	T	T			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:206457830G>T	uc001hgz.1	-	c.61C>A	c.(61-63)CTC>ATC	p.L21I	PLXNA2_uc001hha.2_Missense_Mutation_p.L75I	NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2	21					axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)	2														0.481928	120.396051	120.419533	40	43	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(81;0.199)	Missense_Mutation	SNP	206457830	206457830	12546	1	G	T	T	34	34	PLXNA2	T	3	3
LEFTY1	10637	broad.mit.edu	36	1	224141933	224141933	+	Missense_Mutation	SNP	T	C	C			TCGA-76-4935-01	TCGA-76-4935-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr1:224141933T>C	uc001hpo.1	-	c.526A>G	c.(526-528)AAG>GAG	p.K176E	LEFTY1_uc009xej.1_3'UTR	NM_020997	NP_066277	O75610	LFTY1_HUMAN	left-right determination, factor B	176					cell growth|multicellular organismal development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)													0.210526	7.092004	8.564137	4	15	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	224141933	224141933	9039	1	T	C	C	62	62	LEFTY1	C	4	4
C1orf173	127254	broad.mit.edu	36	1	74811505	74811505	+	Missense_Mutation	SNP	G	C	C			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:74811505G>C	uc001dgg.1	-	c.2477C>G	c.(2476-2478)ACA>AGA	p.T826R		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	826	Glu-rich.									ovary(3)|central_nervous_system(1)	4														0.420354	322.390135	323.661603	95	131	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	74811505	74811505	2081	1	G	C	C	48	48	C1orf173	C	3	3
GALNT5	11227	broad.mit.edu	36	2	157873432	157873432	+	Silent	SNP	A	G	G			TCGA-76-4935-01	TCGA-76-4935-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:157873432A>G	uc002tzg.1	+	c.2628A>G	c.(2626-2628)AGA>AGG	p.R876R		NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	876	Lumenal (Potential).|Ricin B-type lectin.				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)	3														0.433198	365.680044	366.641755	107	140	AA		KEEP	---	---	---	---	capture			Silent	SNP	157873432	157873432	6480	2	A	G	G	9	9	GALNT5	G	4	4
VIL1	7429	broad.mit.edu	36	2	219002603	219002603	+	Silent	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:219002603C>T	uc002via.1	+	c.810C>T	c.(808-810)GTC>GTT	p.V270V	VIL1_uc002vib.1_Silent_p.V270V|VIL1_uc002vic.1_Silent_p.V270V	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	270	Core.|Gelsolin-like 3.				actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)												0.094675	7.014483	34.865272	16	153	CC		KEEP	---	---	---	---	capture		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)	Silent	SNP	219002603	219002603	17731	2	C	T	T	31	31	VIL1	T	1	1
C2orf39	92749	broad.mit.edu	36	2	26500688	26500688	+	Silent	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:26500688C>T	uc002rhg.1	+	c.402C>T	c.(400-402)TTC>TTT	p.F134F	C2orf39_uc010eym.1_Intron	NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	134	Potential.										0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)													0.113879	36.202454	77.515115	32	249	CC		KEEP	---	---	---	---	capture			Silent	SNP	26500688	26500688	2252	2	C	T	T	31	31	C2orf39	T	1	1
SRBD1	55133	broad.mit.edu	36	2	45655291	45655291	+	Missense_Mutation	SNP	G	A	A			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:45655291G>A	uc002rus.1	-	c.1148C>T	c.(1147-1149)ACG>ATG	p.T383M		NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	383					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)												0.371257	177.907235	180.338833	62	105	GG		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)		Missense_Mutation	SNP	45655291	45655291	15647	2	G	A	A	40	40	SRBD1	A	1	1
GOLGA4	2803	broad.mit.edu	36	3	37341853	37341853	+	Missense_Mutation	SNP	G	A	A			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:37341853G>A	uc003cgw.1	+	c.3538G>A	c.(3538-3540)GTT>ATT	p.V1180I	GOLGA4_uc003cgv.1_Missense_Mutation_p.V1158I|GOLGA4_uc010hgs.1_Intron|GOLGA4_uc003cgx.1_Missense_Mutation_p.V1039I|GOLGA4_uc010hgr.1_Missense_Mutation_p.V719I	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1158	Potential.|Glu-rich.				vesicle-mediated transport	Golgi membrane|trans-Golgi network				ovary(2)|breast(1)|central_nervous_system(1)	4														0.433333	123.711625	124.060442	39	51	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	37341853	37341853	6824	3	G	A	A	36	36	GOLGA4	A	2	2
HCN1	348980	broad.mit.edu	36	5	45298349	45298349	+	Missense_Mutation	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:45298349C>T	uc003jok.1	-	c.2104G>A	c.(2104-2106)GCG>ACG	p.A702T		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	702	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1														0.465753	98.843513	98.917864	34	39	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	45298349	45298349	7278	5	C	T	T	27	27	HCN1	T	1	1
RGNEF	64283	broad.mit.edu	36	5	73084634	73084634	+	Missense_Mutation	SNP	G	A	A			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:73084634G>A	uc010izf.1	+	c.326G>A	c.(325-327)CGC>CAC	p.R109H	RGNEF_uc003kcx.1_Missense_Mutation_p.R109H|RGNEF_uc003kcy.1_Missense_Mutation_p.R109H	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	109					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)												0.411765	15.109855	15.228016	7	10	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)	Missense_Mutation	SNP	73084634	73084634	13756	5	G	A	A	38	38	RGNEF	A	1	1
DAXX	1616	broad.mit.edu	36	6	33394924	33394924	+	Missense_Mutation	SNP	C	A	A			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:33394924C>A	uc003oec.1	-	c.1991G>T	c.(1990-1992)TGT>TTT	p.C664F	ZBTB22_uc003oeb.1_5'Flank|ZBTB22_uc010juu.1_5'Flank|ZBTB22_uc010juv.1_5'Flank|DAXX_uc003oed.1_Missense_Mutation_p.C664F	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	664	Interaction with SPOP.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)	22										125				0.110619	24.708037	58.610296	25	201	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	33394924	33394924	4410	6	C	A	A	17	17	DAXX	A	3	3
PPP1R3A	5506	broad.mit.edu	36	7	113306068	113306068	+	Missense_Mutation	SNP	G	A	A			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:113306068G>A	uc010ljy.1	-	c.2315C>T	c.(2314-2316)GCG>GTG	p.A772V		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	772					glycogen metabolic process	integral to membrane				ovary(9)|pancreas(7)|skin(2)|breast(2)|lung(1)	21										235				0.301003	236.227908	246.808625	90	209	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	113306068	113306068	12806	7	G	A	A	38	38	PPP1R3A	A	1	1
GIMAP1	170575	broad.mit.edu	36	7	150048401	150048401	+	Missense_Mutation	SNP	G	A	A			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:150048401G>A	uc003whp.1	+	c.400G>A	c.(400-402)GCC>ACC	p.A134T	GIMAP1_uc003whq.1_Missense_Mutation_p.A126T	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	126	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3														0.161538	34.233789	48.372986	21	109	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Missense_Mutation	SNP	150048401	150048401	6647	7	G	A	A	38	38	GIMAP1	A	1	1
ABCB5	340273	broad.mit.edu	36	7	20749124	20749124	+	Nonsense_Mutation	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:20749124C>T	uc010kuh.1	+	c.3124C>T	c.(3124-3126)CGA>TGA	p.R1042*	ABCB5_uc003suw.2_Nonsense_Mutation_p.R597*|ABCB5_uc010kui.1_Nonsense_Mutation_p.R597*	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	597	Cytoplasmic (Potential).|ABC transporter 2.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			large_intestine(1)|ovary(1)|pancreas(1)	3														0.097902	7.349946	30.493434	14	129	CC		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	20749124	20749124	45	7	C	T	T	27	27	ABCB5	T	5	1
FAM83H	286077	broad.mit.edu	36	8	144880617	144880617	+	Missense_Mutation	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:144880617C>T	uc003yzk.1	-	c.3002G>A	c.(3001-3003)CGT>CAT	p.R1001H	FAM83H_uc010mfk.1_Non-coding_Transcript	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	hypothetical protein LOC286077	1001					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)													0.65	36.168444	36.563183	13	7	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)		Missense_Mutation	SNP	144880617	144880617	5866	8	C	T	T	19	19	FAM83H	T	1	1
FAM110B	90362	broad.mit.edu	36	8	59222127	59222127	+	Missense_Mutation	SNP	G	C	C			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:59222127G>C	uc003xtj.1	+	c.784G>C	c.(784-786)GAC>CAC	p.D262H	FAM110B_uc010lyn.1_Missense_Mutation_p.D262H	NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	262						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)												0.119318	35.949859	60.986646	21	155	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	59222127	59222127	5594	8	G	C	C	33	33	FAM110B	C	3	3
ZFHX4	79776	broad.mit.edu	36	8	77930810	77930810	+	Nonsense_Mutation	SNP	C	G	G			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:77930810C>G	uc003yav.1	+	c.8963C>G	c.(8962-8964)TCA>TGA	p.S2988*	ZFHX4_uc003yau.1_Nonsense_Mutation_p.S3033*|ZFHX4_uc003yaw.1_Nonsense_Mutation_p.S2988*	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2988					regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15														0.422018	165.335197	165.913137	46	63	CC		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(89;0.0895)		Nonsense_Mutation	SNP	77930810	77930810	18223	8	C	G	G	29	29	ZFHX4	G	5	3
PIP5K1B	8395	broad.mit.edu	36	9	70699150	70699150	+	Missense_Mutation	SNP	A	G	G			TCGA-76-4935-01	TCGA-76-4935-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr9:70699150A>G	uc004agu.1	+	c.547A>G	c.(547-549)ATC>GTC	p.I183V	PIP5K1B_uc004agv.1_Non-coding_Transcript|PIP5K1B_uc010mok.1_Missense_Mutation_p.I27V	NM_003558	NP_003549	O14986	PI51B_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	183	PIPK.					endomembrane system|membrane|uropod	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|protein binding				0										223				0.457143	285.595792	285.874011	80	95	AA		KEEP	---	---	---	---	capture		Lung(182;0.133)	Missense_Mutation	SNP	70699150	70699150	12364	9	A	G	G	16	16	PIP5K1B	G	4	4
WNK2	65268	broad.mit.edu	36	9	95094974	95094974	+	Silent	SNP	C	G	G			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr9:95094974C>G	uc004ati.1	+	c.5517C>G	c.(5515-5517)GGC>GGG	p.G1839G	WNK2_uc004atj.1_Silent_p.G1802G|WNK2_uc004atk.2_Silent_p.G1439G|WNK2_uc004atl.1_Silent_p.G396G	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	1839					intracellular protein kinase cascade|protein phosphorylation		ATP binding|protein binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|large_intestine(1)|central_nervous_system(1)	7										1420				0.375	7.521936	7.632051	3	5	CC		KEEP	---	---	---	---	capture			Silent	SNP	95094974	95094974	17952	9	C	G	G	27	27	WNK2	G	3	3
TRPC5	7224	broad.mit.edu	36	X	110906728	110906728	+	Silent	SNP	G	A	A			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chrX:110906728G>A	uc004epl.1	-	c.2391C>T	c.(2389-2391)GTC>GTT	p.V797V		NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	797	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1														0.127619	93.876561	164.844342	67	458	GG		KEEP	---	---	---	---	capture			Silent	SNP	110906728	110906728	17133	23	G	A	A	33	33	TRPC5	A	2	2
AFF2	2334	broad.mit.edu	36	X	147867576	147867576	+	Silent	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:147867576C>T	uc004fcp.1	+	c.3477C>T	c.(3475-3477)TGC>TGT	p.C1159C	AFF2_uc004fcq.1_Silent_p.C1149C|AFF2_uc004fcr.1_Silent_p.C1120C|AFF2_uc004fcs.1_Silent_p.C1124C	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	1159					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)													0.449339	311.52331	312.030528	102	125	CC		KEEP	---	---	---	---	capture			Silent	SNP	147867576	147867576	358	23	C	T	T	28	28	AFF2	T	2	2
MTMR1	8776	broad.mit.edu	36	X	149681734	149681734	+	Silent	SNP	C	A	A			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:149681734C>A	uc004feh.1	+	c.1896C>A	c.(1894-1896)GTC>GTA	p.V632V	MTMR1_uc004fei.1_Silent_p.V624V|MTMR1_uc004fej.1_Non-coding_Transcript|MTMR1_uc010ntf.1_Intron	NM_003828	NP_003819	Q13613	MTMR1_HUMAN	myotubularin-related protein 1	624						plasma membrane	protein tyrosine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)													0.121212	22.378666	45.58925	20	145	CC		KEEP	---	---	---	---	capture			Silent	SNP	149681734	149681734	10331	23	C	A	A	29	29	MTMR1	A	3	3
ABCD1	215	broad.mit.edu	36	X	152661940	152661940	+	Missense_Mutation	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:152661940C>T	uc004fif.1	+	c.1937C>T	c.(1936-1938)GCG>GTG	p.A646V	ABCD1_uc004fig.1_Missense_Mutation_p.A146V|ABCD1_uc004fih.1_Silent_p.G16G	NM_000033	NP_000024	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member	646	ABC transporter.		A -> P (in X-ALD).		fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)													0.296296	21.691199	22.692194	8	19	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	152661940	152661940	61	23	C	T	T	27	27	ABCD1	T	1	1
RAI2	10742	broad.mit.edu	36	X	17728791	17728791	+	Missense_Mutation	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:17728791C>T	uc004cyf.1	-	c.1261G>A	c.(1261-1263)GAA>AAA	p.E421K	RAI2_uc004cyg.1_Missense_Mutation_p.E421K|RAI2_uc010nfa.1_Missense_Mutation_p.E421K|RAI2_uc004cyh.2_Missense_Mutation_p.E421K|RAI2_uc004cyi.2_Missense_Mutation_p.E421K	NM_021785	NP_068557	Q9Y5P3	RAI2_HUMAN	retinoic acid induced 2	421					embryo development					breast(1)	1	Hepatocellular(33;0.183)													0.402062	340.016695	342.456547	117	174	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	17728791	17728791	13469	23	C	T	T	31	31	RAI2	T	1	1
KLHL34	257240	broad.mit.edu	36	X	21585134	21585134	+	Missense_Mutation	SNP	C	G	G			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:21585134C>G	uc004czz.1	-	c.694G>C	c.(694-696)GTA>CTA	p.V232L		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	232	BACK.									ovary(1)	1														0.407407	35.621595	35.823349	11	16	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	21585134	21585134	8701	23	C	G	G	19	19	KLHL34	G	3	3
MXRA5	25878	broad.mit.edu	36	X	3250193	3250193	+	Missense_Mutation	SNP	T	C	C			TCGA-76-4935-01	TCGA-76-4935-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chrX:3250193T>C	uc004crg.2	-	c.3533A>G	c.(3532-3534)GAG>GGG	p.E1178G		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican	1178						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(23;0.00031)|Lung NSC(23;0.000946)												0.413386	350.532681	352.195989	105	149	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	3250193	3250193	10397	23	T	C	C	54	54	MXRA5	C	4	4
DUSP21	63904	broad.mit.edu	36	X	44588568	44588568	+	Silent	SNP	C	T	T			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:44588568C>T	uc004dgd.1	+	c.246C>T	c.(244-246)TAC>TAT	p.Y82Y		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	82	Tyrosine-protein phosphatase.					cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2														0.368421	191.183145	194.080298	70	120	CC		KEEP	---	---	---	---	capture			Silent	SNP	44588568	44588568	5005	23	C	T	T	19	19	DUSP21	T	1	1
PCDH11X	27328	broad.mit.edu	36	X	91760379	91760379	+	Silent	SNP	C	A	A			TCGA-76-4935-01	TCGA-76-4935-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:91760379C>A	uc004efk.1	+	c.3828C>A	c.(3826-3828)GTC>GTA	p.V1276V	PCDH11X_uc004efl.1_Silent_p.V1266V|PCDH11X_uc004efn.1_Silent_p.V1258V|PCDH11X_uc004efo.1_Silent_p.V1239V|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Silent_p.V1268V	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1276	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						NSCLC(38;925 1092 2571 38200 45895)								0.433107	553.537422	555.261765	191	250	CC		KEEP	---	---	---	---	capture			Silent	SNP	91760379	91760379	11928	23	C	A	A	29	29	PCDH11X	A	3	3
CSTF2	1478	broad.mit.edu	36	X	99962091	99962091	+	Silent	SNP	G	T	T			TCGA-76-4935-01	TCGA-76-4935-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chrX:99962091G>T	uc010nnd.1	+	c.30G>T	c.(28-30)GCG>GCT	p.A10A	CSTF2_uc004egh.1_Silent_p.A10A|CSTF2_uc004egi.1_Silent_p.A10A	NM_001325	NP_001316	P33240	CSTF2_HUMAN	cleavage stimulation factor subunit 2	10					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	nucleotide binding|protein binding|protein binding|RNA binding				0														0.327869	54.86735	56.476298	20	41	GG		KEEP	---	---	---	---	capture			Silent	SNP	99962091	99962091	4125	23	G	T	T	39	39	CSTF2	T	3	3
PTEN	5728	broad.mit.edu	36	10	89710785	89710788	+	Frame_Shift_Del	DEL	CTTT	-	-			TCGA-76-4935-01	TCGA-76-4935-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:89710785_89710788delCTTT	uc001kfb.1	+	c.956_959delCTTT	c.(955-960)ACTTTAfs	p.T319fs		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	319_320	C2 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.T319fs*1(21)|p.L318fs*2(10)|p.T319fs*6(6)|p.T319fs*24(4)|p.T319del(2)|p.L320*(2)|p.T319_K332del(1)|p.G165_*404del(1)|p.G165_K342del(1)|p.L316fs*1(1)|p.T319fs*4(1)|p.T319fs*5(1)|p.W274_F341del(1)|p.V317_K322del(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)			0.81			104	25				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	89710785	89710788	13192	10	CTTT	-	-	20	20	PTEN	-	5	5
