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	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
SLC45A1	50651	broad.mit.edu	37	1	8398053	8398053	+	Splice_Site	SNP	G	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr1:8398053G>T	uc001apb.2	+	6	1774	c.1774_splice	c.e6+1	p.A592_splice	SLC45A1_uc001apc.2_Splice_Site_p.A290_splice	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5						carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		TTCTACTCAGGTACCCGCTGC	0.582													6	47	---	---	---	---	PASS
PRAMEF8	391002	broad.mit.edu	37	1	12979764	12979764	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr1:12979764G>A	uc001aup.2	+	4	1039	c.956G>A	c.(955-957)CGT>CAT	p.R319H		NM_001012276	NP_001012276	Q5VWM4	PRAM8_HUMAN	PRAME family member 8	319	LRR 1.										0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCGAGCATCCGTCAATTAAAG	0.587													8	309	---	---	---	---	PASS
CROCCL1	84809	broad.mit.edu	37	1	16945027	16945027	+	RNA	SNP	T	C	C	rs1050322	by1000genomes	TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr1:16945027T>C	uc010ocf.1	-	4		c.1130A>G			CROCCL1_uc009vov.1_RNA|CROCCL1_uc001aze.2_RNA|CROCCL1_uc001azf.2_RNA					Homo sapiens mRNA for FLJ00313 protein.												0						gcaaaaatgctctctgcagca	0.095													2	1	---	---	---	---	PASS
CSMD2	114784	broad.mit.edu	37	1	34112373	34112373	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr1:34112373G>A	uc001bxn.1	-	29	4558	c.4529C>T	c.(4528-4530)CCT>CTT	p.P1510L	CSMD2_uc001bxm.1_Missense_Mutation_p.P1550L|CSMD2_uc001bxo.1_Missense_Mutation_p.P423L	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1510	CUB 9.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TCCTATGAGAGGGCTGAGAGA	0.562													4	35	---	---	---	---	PASS
KIAA0319L	79932	broad.mit.edu	37	1	35915489	35915489	+	Missense_Mutation	SNP	T	C	C			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr1:35915489T>C	uc001byx.2	-	15	2590	c.2332A>G	c.(2332-2334)ACC>GCC	p.T778A	KIAA0319L_uc001byw.2_Missense_Mutation_p.T220A|KIAA0319L_uc010ohv.1_Missense_Mutation_p.T420A	NM_024874	NP_079150	Q8IZA0	K319L_HUMAN	dyslexia susceptibility 2-like	778	PKD 5.|Extracellular (Potential).					cytoplasmic vesicle part|integral to membrane	protein binding			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TCCACAGTGGTCCGGTCTGTG	0.488													22	154	---	---	---	---	PASS
CSF3R	1441	broad.mit.edu	37	1	36935383	36935383	+	Silent	SNP	G	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr1:36935383G>T	uc001caw.1	-	11	1522	c.1344C>A	c.(1342-1344)GGC>GGA	p.G448G	CSF3R_uc001cat.1_Silent_p.G11G|CSF3R_uc009vvc.1_Silent_p.G11G|CSF3R_uc001cau.1_Translation_Start_Site|CSF3R_uc001cav.1_Silent_p.G448G|CSF3R_uc001cax.1_Silent_p.G448G|CSF3R_uc001cay.1_Silent_p.G448G	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	448	Extracellular (Potential).|Fibronectin type-III 4.				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	GGGGCTCCCAGCCTACCCAGA	0.587													5	74	---	---	---	---	PASS
ZFYVE9	9372	broad.mit.edu	37	1	52704167	52704167	+	Missense_Mutation	SNP	G	C	C			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr1:52704167G>C	uc001cto.2	+	4	1250	c.1078G>C	c.(1078-1080)GAT>CAT	p.D360H	ZFYVE9_uc001ctn.2_Missense_Mutation_p.D360H|ZFYVE9_uc001ctp.2_Missense_Mutation_p.D360H	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	360					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						ACGGTGTTCAGATTGCCTTGT	0.428													17	206	---	---	---	---	PASS
SEMA4A	64218	broad.mit.edu	37	1	156131152	156131152	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr1:156131152G>A	uc001fnl.2	+	9	930	c.826G>A	c.(826-828)GAA>AAA	p.E276K	SEMA4A_uc009wrq.2_Missense_Mutation_p.E276K|SEMA4A_uc001fnm.2_Missense_Mutation_p.E276K|SEMA4A_uc001fnn.2_Missense_Mutation_p.E144K|SEMA4A_uc001fno.2_Missense_Mutation_p.E276K	NM_022367	NP_071762	Q9H3S1	SEM4A_HUMAN	semaphorin B precursor	276	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					CGTGGGCGGCGAAAAGCTGCT	0.512													10	59	---	---	---	---	PASS
MRPS14	63931	broad.mit.edu	37	1	174987689	174987689	+	Silent	SNP	G	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr1:174987689G>T	uc001gkk.2	-	2	86	c.69C>A	c.(67-69)GGC>GGA	p.G23G	MRPS14_uc009wwr.2_Silent_p.G8G	NM_022100	NP_071383	O60783	RT14_HUMAN	mitochondrial ribosomal protein S14	23					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0						TTCGAACTTGGCCTGAAGCTG	0.458													9	131	---	---	---	---	PASS
TNN	63923	broad.mit.edu	37	1	175046577	175046577	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr1:175046577G>A	uc001gkl.1	+	2	136	c.23G>A	c.(22-24)CGC>CAC	p.R8H	TNN_uc010pmx.1_Missense_Mutation_p.R8H	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	8					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GAGATGTTCCGCTTCCCTATG	0.572													8	239	---	---	---	---	PASS
POTEE	445582	broad.mit.edu	37	2	132021050	132021050	+	Missense_Mutation	SNP	G	C	C			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr2:132021050G>C	uc002tsn.2	+	15	2074	c.2022G>C	c.(2020-2022)AAG>AAC	p.K674N	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.K274N|POTEE_uc002tsl.2_Missense_Mutation_p.K256N|POTEE_uc010fmy.1_Missense_Mutation_p.K138N	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	674	Potential.						ATP binding				0						TAAGAGAAAAGAAATATTTGG	0.383													6	43	---	---	---	---	PASS
SCN7A	6332	broad.mit.edu	37	2	167262388	167262388	+	Missense_Mutation	SNP	C	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr2:167262388C>A	uc002udu.1	-	25	4878	c.4751G>T	c.(4750-4752)AGA>ATA	p.R1584I		NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	1584					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						ACCCATAACTCTCTTTGTAAA	0.428													51	357	---	---	---	---	PASS
POC1A	25886	broad.mit.edu	37	3	52156492	52156492	+	Missense_Mutation	SNP	A	C	C			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr3:52156492A>C	uc003dcu.2	-	9	1202	c.884T>G	c.(883-885)GTG>GGG	p.V295G	POC1A_uc003dcv.2_Missense_Mutation_p.V257G|POC1A_uc003dcw.2_Missense_Mutation_p.V295G	NM_015426	NP_056241	Q8NBT0	POC1A_HUMAN	WD repeat domain 51A isoform 1	295	WD 7.					centriole|microtubule basal body					0						CCAAACCATCACCTGCCAAAA	0.517													7	29	---	---	---	---	PASS
COPG	22820	broad.mit.edu	37	3	128996231	128996231	+	Missense_Mutation	SNP	G	C	C			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr3:128996231G>C	uc003els.2	+	24	2689	c.2589G>C	c.(2587-2589)GAG>GAC	p.E863D	COPG_uc010htb.2_Missense_Mutation_p.E769D|C3orf37_uc003elt.2_5'Flank|C3orf37_uc003elu.2_5'Flank|C3orf37_uc003elv.2_5'Flank|C3orf37_uc003elw.2_5'Flank	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	863	Interaction with ZNF289/ARFGAP2.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						GTTTGGAGGAGCTGCCAGTAG	0.547													7	32	---	---	---	---	PASS
CRIPAK	285464	broad.mit.edu	37	4	1388998	1388998	+	Silent	SNP	G	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr4:1388998G>A	uc003gdf.2	+	1	3659	c.699G>A	c.(697-699)ACG>ACA	p.T233T		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	233	6.				ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			CTGCTCACACGTGCCGATGCG	0.667													5	101	---	---	---	---	PASS
PDGFRA	5156	broad.mit.edu	37	4	55138618	55138618	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr4:55138618C>T	uc003han.3	+	9	1626	c.1295C>T	c.(1294-1296)ACG>ATG	p.T432M	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Missense_Mutation_p.T326M|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	432	Ig-like C2-type 5.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	GGGGGACAGACGGTGAGGTGC	0.473			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			17	118	---	---	---	---	PASS
ANK2	287	broad.mit.edu	37	4	114251487	114251487	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr4:114251487C>T	uc003ibe.3	+	27	3086	c.2986C>T	c.(2986-2988)CGG>TGG	p.R996W	ANK2_uc003ibd.3_Missense_Mutation_p.R987W|ANK2_uc003ibf.3_Missense_Mutation_p.R996W|ANK2_uc011cgc.1_Missense_Mutation_p.R205W|ANK2_uc003ibg.3_Missense_Mutation_p.R24W|ANK2_uc003ibc.2_Missense_Mutation_p.R972W|ANK2_uc011cgb.1_Missense_Mutation_p.R1011W	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	996	ZU5.|Interaction with SPTBN1.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TATTCCACCTCGGAAATGTAC	0.512													7	59	---	---	---	---	PASS
SV2C	22987	broad.mit.edu	37	5	75427791	75427791	+	Silent	SNP	C	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr5:75427791C>T	uc003kei.1	+	2	350	c.216C>T	c.(214-216)GAC>GAT	p.D72D		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	72	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		CCAACGATGACGAAGGCTCAA	0.498													7	52	---	---	---	---	PASS
CDKN2AIPNL	91368	broad.mit.edu	37	5	133747428	133747428	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr5:133747428G>A	uc011cxs.1	-	1	162	c.118C>T	c.(118-120)CGC>TGC	p.R40C	CDKN2AIPNL_uc003kzi.1_Missense_Mutation_p.R40C	NM_080656	NP_542387	Q96HQ2	C2AIL_HUMAN	CDKN2A interacting protein N-terminal like	40											0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AATTCCATGCGGGCCTTCCAT	0.677											OREG0016789	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	32	---	---	---	---	PASS
DND1	373863	broad.mit.edu	37	5	140052312	140052312	+	Silent	SNP	T	G	G			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr5:140052312T>G	uc003lgt.2	-	3	366	c.322A>C	c.(322-324)AGG>CGG	p.R108R		NM_194249	NP_919225	Q8IYX4	DND1_HUMAN	dead end homolog 1	108	RRM 1.				multicellular organismal development|negative regulation of gene silencing by miRNA	cytoplasm|nucleus	AU-rich element binding|nucleotide binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGCCGCGCCTCGAGCTGTAG	0.687													3	4	---	---	---	---	PASS
DND1	373863	broad.mit.edu	37	5	140052331	140052331	+	Silent	SNP	G	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr5:140052331G>T	uc003lgt.2	-	3	347	c.303C>A	c.(301-303)GCC>GCA	p.A101A		NM_194249	NP_919225	Q8IYX4	DND1_HUMAN	dead end homolog 1	101	RRM 1.				multicellular organismal development|negative regulation of gene silencing by miRNA	cytoplasm|nucleus	AU-rich element binding|nucleotide binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCGGGCATAGGCGAAGCCGC	0.687													3	9	---	---	---	---	PASS
NUDCD2	134492	broad.mit.edu	37	5	162886898	162886898	+	Silent	SNP	C	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr5:162886898C>A	uc003lze.2	-	1	246	c.159G>T	c.(157-159)GCG>GCT	p.A53A	HMMR_uc003lzh.2_5'Flank|HMMR_uc003lzf.2_5'Flank|HMMR_uc003lzg.2_5'Flank|HMMR_uc011dem.1_5'Flank	NM_145266	NP_660309	Q8WVJ2	NUDC2_HUMAN	NudC domain containing 2	53	CS.					intracellular					0	Renal(175;0.000281)	Medulloblastoma(196;0.0207)|all_neural(177;0.0966)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0981)|OV - Ovarian serous cystadenocarcinoma(192;0.183)|Epithelial(171;0.247)		CCACCGACAGCGCCACATGCC	0.642													10	72	---	---	---	---	PASS
POLH	5429	broad.mit.edu	37	6	43565468	43565468	+	Missense_Mutation	SNP	G	C	C			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr6:43565468G>C	uc003ovq.3	+	5	830	c.526G>C	c.(526-528)GAT>CAT	p.D176H	POLH_uc010jyu.2_Missense_Mutation_p.D52H|POLH_uc011dvl.1_RNA|POLH_uc003ovr.3_Missense_Mutation_p.D77H	NM_006502	NP_006493	Q9Y253	POLH_HUMAN	DNA-directed DNA polymerase eta	176	UmuC.				DNA replication|DNA synthesis involved in DNA repair|regulation of DNA repair|response to UV-C	cytoplasm|nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			breast(2)	2	all_cancers(18;1.89e-05)|Lung NSC(15;0.00161)|all_lung(25;0.004)		all cancers(41;0.000753)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0826)|OV - Ovarian serous cystadenocarcinoma(102;0.167)			TCAATGGCTCGATTCTCTTCA	0.408								DNA_polymerases_(catalytic_subunits)	Xeroderma_Pigmentosum				6	59	---	---	---	---	PASS
KIAA1324L	222223	broad.mit.edu	37	7	86556150	86556150	+	Missense_Mutation	SNP	T	C	C			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr7:86556150T>C	uc011kha.1	-	9	1357	c.1172A>G	c.(1171-1173)GAG>GGG	p.E391G	KIAA1324L_uc003uif.1_Missense_Mutation_p.E151G|KIAA1324L_uc011kgz.1_Missense_Mutation_p.E277G|KIAA1324L_uc003uie.2_Missense_Mutation_p.E224G	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	391	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					ATCCTTCTTCTCTCCAGAAGG	0.428													14	265	---	---	---	---	PASS
MET	4233	broad.mit.edu	37	7	116340051	116340051	+	Missense_Mutation	SNP	A	G	G			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr7:116340051A>G	uc003vij.2	+	2	1100	c.913A>G	c.(913-915)AAA>GAA	p.K305E	MET_uc010lkh.2_Missense_Mutation_p.K305E|MET_uc011knc.1_Missense_Mutation_p.K305E|MET_uc011knd.1_Missense_Mutation_p.K305E|MET_uc011kne.1_Missense_Mutation_p.K305E|MET_uc011knf.1_Missense_Mutation_p.K305E|MET_uc011kng.1_Missense_Mutation_p.K305E|MET_uc011knh.1_Missense_Mutation_p.K305E|MET_uc011kni.1_Missense_Mutation_p.K305E|MET_uc003vii.1_Missense_Mutation_p.K324E|MET_uc010lkg.2_Missense_Mutation_p.K305E|MET_uc011kmz.1_Missense_Mutation_p.K305E|MET_uc011kna.1_Missense_Mutation_p.K305E|MET_uc011knb.1_Missense_Mutation_p.K305E	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	305	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			AGAAAAGAGAAAAAAGAGATC	0.428			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				11	202	---	---	---	---	PASS
TRY6	154754	broad.mit.edu	37	7	142482229	142482229	+	Silent	SNP	T	A	A	rs145494190	by1000genomes	TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr7:142482229T>A	uc011ksq.1	+	5	692	c.609T>A	c.(607-609)CCT>CCA	p.P203P	uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|uc003wan.1_Intron	NR_001296				SubName: Full=Protease, serine, 3; Flags: Fragment;												0						CTGGTGGCCCTGTGGTCTGCA	0.493													4	65	---	---	---	---	PASS
SSPO	23145	broad.mit.edu	37	7	149518961	149518961	+	Silent	SNP	T	C	C	rs1008335	by1000genomes	TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr7:149518961T>C	uc010lpk.2	+	91	12765	c.12765T>C	c.(12763-12765)GCT>GCC	p.A4255A	SSPO_uc010lpm.1_RNA|SSPO_uc003wgg.2_RNA|SSPO_uc003wgh.2_RNA|SSPO_uc003wgi.1_5'Flank	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	4255	TSP type-1 20.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TGCCTGAGGCTTGGACGCTGT	0.667													3	6	---	---	---	---	PASS
RP1	6101	broad.mit.edu	37	8	55540711	55540711	+	Nonsense_Mutation	SNP	T	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr8:55540711T>A	uc003xsd.1	+	4	4417	c.4269T>A	c.(4267-4269)TGT>TGA	p.C1423*	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1423					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTGAAAATTGTTCACTAAGGA	0.363													15	110	---	---	---	---	PASS
MSC	9242	broad.mit.edu	37	8	72756371	72756371	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr8:72756371G>A	uc003xyx.1	-	1	361	c.43C>T	c.(43-45)CGG>TGG	p.R15W	uc011lff.1_Intron|uc003xyy.2_RNA	NM_005098	NP_005089	O60682	MUSC_HUMAN	musculin	15					transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Breast(64;0.176)		Epithelial(68;0.137)|BRCA - Breast invasive adenocarcinoma(89;0.203)			TGCAGCCCCCGAAGCTCCATC	0.692													4	21	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	9	66466226	66466226	+	RNA	SNP	A	G	G			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr9:66466226A>G	uc004aec.2	+	3		c.859A>G								Homo sapiens, clone IMAGE:5213378, mRNA.																		cctagcggagagagagccgga	0.104													2	6	---	---	---	---	PASS
C9orf98	158067	broad.mit.edu	37	9	135702270	135702270	+	Missense_Mutation	SNP	T	G	G			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr9:135702270T>G	uc004cbu.1	-	8	1284	c.728A>C	c.(727-729)GAC>GCC	p.D243A	C9orf98_uc010mzx.1_RNA|C9orf98_uc004cbv.1_Missense_Mutation_p.D39A	NM_152572	NP_689785	Q96MA6	KAD8_HUMAN	putative adenylate kinase-like protein C9orf98	243						cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;4.89e-06)|Epithelial(140;0.00016)		ACATGGCTGGTCAGCACTGAT	0.557													15	168	---	---	---	---	PASS
PIPSL	266971	broad.mit.edu	37	10	95719865	95719865	+	Missense_Mutation	SNP	T	G	G			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr10:95719865T>G	uc009xuj.2	-	1	1808	c.1289A>C	c.(1288-1290)TAC>TCC	p.Y430S		NR_002319				RecName: Full=Phosphatidylinositol-4-phosphate 5-kinase type-1 alpha;          Short=PtdIns(4)P-5-kinase alpha;          Short=PIP5KIalpha;          EC=2.7.1.68; AltName: Full=Phosphatidylinositol-4-phosphate 5-kinase type I alpha; AltName: Full=68 kDa type I phosphatidylinositol-4-phosphate 5-kinase alpha;												0						CAATGGCTGGTAAGTAATGCA	0.493													6	42	---	---	---	---	PASS
KLC2	64837	broad.mit.edu	37	11	66032690	66032690	+	Missense_Mutation	SNP	G	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr11:66032690G>T	uc010rov.1	+	11	1561	c.1318G>T	c.(1318-1320)GCC>TCC	p.A440S	KLC2_uc010row.1_Missense_Mutation_p.A440S|KLC2_uc009yra.2_Intron|KLC2_uc001ohb.2_Missense_Mutation_p.A440S|KLC2_uc010rox.1_Missense_Mutation_p.A363S|KLC2_uc001ohc.2_Missense_Mutation_p.A440S|KLC2_uc001ohd.2_Missense_Mutation_p.A363S|KLC2_uc001ohe.1_Missense_Mutation_p.A301S	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	440					blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0						CTGGTACAAGGCCTGTAAAGT	0.373													7	71	---	---	---	---	PASS
TMPRSS4	56649	broad.mit.edu	37	11	117988097	117988097	+	Silent	SNP	C	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr11:117988097C>T	uc010rxo.1	+	12	1521	c.1230C>T	c.(1228-1230)TGC>TGT	p.C410C	TMPRSS4_uc010rxp.1_Silent_p.C405C|TMPRSS4_uc010rxq.1_Silent_p.C263C|TMPRSS4_uc010rxr.1_Silent_p.C385C|TMPRSS4_uc010rxs.1_Silent_p.C370C|TMPRSS4_uc009yzu.2_RNA|TMPRSS4_uc010rxt.1_Silent_p.C385C	NM_019894	NP_063947	Q9NRS4	TMPS4_HUMAN	transmembrane protease, serine 4 isoform 1	410	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0431)|all_hematologic(192;0.164)|Breast(348;0.183)|all_neural(223;0.238)		BRCA - Breast invasive adenocarcinoma(274;4.16e-05)|Epithelial(105;0.00204)		GCTATGGCTGCGGGGGCCCGA	0.562													29	183	---	---	---	---	PASS
RNF26	79102	broad.mit.edu	37	11	119207000	119207000	+	Missense_Mutation	SNP	G	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr11:119207000G>T	uc001pwh.2	+	1	1764	c.1168G>T	c.(1168-1170)GTG>TTG	p.V390L		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	390	RING-type.						zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		GAGCAAGACAGTGTTGCTCCT	0.607													16	95	---	---	---	---	PASS
BIN2	51411	broad.mit.edu	37	12	51696475	51696475	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr12:51696475C>T	uc001ryg.2	-	4	359	c.307G>A	c.(307-309)GTA>ATA	p.V103I	BIN2_uc009zlz.2_Missense_Mutation_p.V103I|BIN2_uc001ryh.2_5'UTR|BIN2_uc010sng.1_Missense_Mutation_p.V77I	NM_016293	NP_057377	Q9UBW5	BIN2_HUMAN	bridging integrator 2	103	BAR.					cytoplasm	protein binding			ovary(1)	1						CTTACCCATACGATGGCCTTC	0.448													47	320	---	---	---	---	PASS
KCNC2	3747	broad.mit.edu	37	12	75601572	75601572	+	Silent	SNP	C	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr12:75601572C>A	uc001sxg.1	-	2	736	c.192G>T	c.(190-192)CCG>CCT	p.P64P	KCNC2_uc009zry.2_Silent_p.P64P|KCNC2_uc001sxe.2_Silent_p.P64P|KCNC2_uc001sxf.2_Silent_p.P64P|KCNC2_uc010stw.1_Silent_p.P64P	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	64	Gly/Pro-rich (insert).|Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						gcgctctcggcggcggcgaca	0.527													2	0	---	---	---	---	PASS
SBNO1	55206	broad.mit.edu	37	12	123834911	123834911	+	Silent	SNP	A	G	G			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr12:123834911A>G	uc010tap.1	-	1	78	c.78T>C	c.(76-78)ATT>ATC	p.I26I	SBNO1_uc010tao.1_Silent_p.I26I|SBNO1_uc010taq.1_5'UTR|SBNO1_uc001uet.2_Silent_p.I26I|SBNO1_uc001ueu.2_Silent_p.I26I|SBNO1_uc001uev.2_Silent_p.I26I|SBNO1_uc009zxy.1_Silent_p.I26I	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	26							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		CTCCACCATCAATATCAAAGA	0.438													16	386	---	---	---	---	PASS
INTS6	26512	broad.mit.edu	37	13	51942011	51942011	+	Missense_Mutation	SNP	G	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr13:51942011G>T	uc001vfk.2	-	17	3114	c.2500C>A	c.(2500-2502)CTG>ATG	p.L834M	INTS6_uc001vfi.2_Missense_Mutation_p.L518M|INTS6_uc001vfj.2_Missense_Mutation_p.L821M|INTS6_uc001vfl.2_Missense_Mutation_p.L656M	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	834					snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		ACATGCTTCAGTAAAGTGAAG	0.269													3	76	---	---	---	---	PASS
PRMT5	10419	broad.mit.edu	37	14	23397824	23397824	+	Silent	SNP	C	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr14:23397824C>A	uc001whm.1	-	2	202	c.111G>T	c.(109-111)GGG>GGT	p.G37G	PRMT5_uc001whl.1_Silent_p.G20G|PRMT5_uc010akd.1_RNA|PRMT5_uc010tnf.1_Intron|PRMT5_uc010tng.1_Silent_p.G20G|PRMT5_uc010tnh.1_Silent_p.G37G|PRMT5_uc001whn.1_Silent_p.G20G	NM_006109	NP_006100	O14744	ANM5_HUMAN	protein arginine methyltransferase 5 isoform a	37					cell proliferation|histone H4-R3 methylation|ncRNA metabolic process|regulation of mitosis|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	histone-arginine N-methyltransferase activity|protein binding|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding			ovary(1)	1	all_cancers(95;2.76e-05)			GBM - Glioblastoma multiforme(265;0.0126)		GGAAATCAAACCTACAACCGC	0.512													4	100	---	---	---	---	PASS
CLMN	79789	broad.mit.edu	37	14	95670136	95670136	+	Missense_Mutation	SNP	C	T	T	rs78561092	byFrequency	TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr14:95670136C>T	uc001yef.2	-	9	1666	c.1550G>A	c.(1549-1551)CGC>CAC	p.R517H		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	517						integral to membrane	actin binding				0				Epithelial(152;0.193)		TTCATCGTGGCGGGCTGTACT	0.458													11	112	---	---	---	---	PASS
ATG2B	55102	broad.mit.edu	37	14	96800092	96800092	+	Silent	SNP	G	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr14:96800092G>A	uc001yfi.2	-	8	1505	c.1140C>T	c.(1138-1140)CTC>CTT	p.L380L		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	380										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		CACCCACAGAGAGGGAATCTT	0.413													4	165	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	15	28929317	28929317	+	RNA	SNP	T	G	G			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr15:28929317T>G	uc010azc.2	+	14		c.2022T>G								Homo sapiens I.M.A.G.E. clone 321824, mRNA sequence.																		AGAATTATATTGAGATCTACT	0.363													6	30	---	---	---	---	PASS
UBR1	197131	broad.mit.edu	37	15	43276106	43276106	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr15:43276106C>T	uc001zqq.2	-	37	4205	c.4139G>A	c.(4138-4140)CGT>CAT	p.R1380H		NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	1380					cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		TGATAGAAGACGAACCAGATG	0.343													5	50	---	---	---	---	PASS
FBN1	2200	broad.mit.edu	37	15	48729540	48729540	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr15:48729540C>T	uc001zwx.1	-	52	6686	c.6358G>A	c.(6358-6360)GGA>AGA	p.G2120R	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2120					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TCATCAGGTCCCACGATGATC	0.423													3	59	---	---	---	---	PASS
MRPL28	10573	broad.mit.edu	37	16	418564	418564	+	Silent	SNP	C	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr16:418564C>T	uc002cgr.1	-	3	529	c.513G>A	c.(511-513)CGG>CGA	p.R171R	MRPL28_uc010bqu.1_Silent_p.R171R|MRPL28_uc002cgs.1_Silent_p.R171R|MRPL28_uc002cgt.1_Silent_p.R171R	NM_006428	NP_006419	Q13084	RM28_HUMAN	mitochondrial ribosomal protein L28 precursor	171					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0		Hepatocellular(16;0.000105)|Lung NSC(18;0.0324)|all_lung(18;0.064)				GGGGGTCCTGCCGGGCAAGCC	0.657													7	64	---	---	---	---	PASS
BCMO1	53630	broad.mit.edu	37	16	81298375	81298375	+	Missense_Mutation	SNP	T	C	C			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr16:81298375T>C	uc002fgn.1	+	5	820	c.602T>C	c.(601-603)ATC>ACC	p.I201T	BCMO1_uc010vnp.1_Missense_Mutation_p.I132T	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	201					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						ATTTTTAAGATCCCTGCCACA	0.438													7	60	---	---	---	---	PASS
SLC13A5	284111	broad.mit.edu	37	17	6597493	6597493	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr17:6597493G>A	uc002gdj.2	-	8	1167	c.1079C>T	c.(1078-1080)GCC>GTC	p.A360V	SLC13A5_uc010vtf.1_Missense_Mutation_p.A360V|SLC13A5_uc010clq.2_Missense_Mutation_p.A317V|SLC13A5_uc002gdk.2_Missense_Mutation_p.A343V	NM_177550	NP_808218	Q86YT5	S13A5_HUMAN	solute carrier family 13, member 5 isoform a	360	Helical; (Potential).					integral to membrane	citrate transmembrane transporter activity				0						CACAAAGATGGCCACAGTGGC	0.522													6	28	---	---	---	---	PASS
ZBTB4	57659	broad.mit.edu	37	17	7366921	7366921	+	Silent	SNP	T	G	G			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr17:7366921T>G	uc002ghc.3	-	4	1630	c.1380A>C	c.(1378-1380)CCA>CCC	p.P460P	ZBTB4_uc002ghd.3_Silent_p.P460P	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	460	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		CTGGGGCAGGTGGAGGCCCAG	0.667													8	31	---	---	---	---	PASS
WDR62	284403	broad.mit.edu	37	19	36595436	36595436	+	Missense_Mutation	SNP	A	C	C	rs1008328	byFrequency	TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr19:36595436A>C	uc002odc.2	+	31	4246	c.4155A>C	c.(4153-4155)TTA>TTC	p.L1385F	WDR62_uc002odd.2_Missense_Mutation_p.L1390F	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1385					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TTGGTCTGTTACAGGGCAGCC	0.602													3	101	---	---	---	---	PASS
MARK4	57787	broad.mit.edu	37	19	45762287	45762287	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr19:45762287C>T	uc002pbb.1	+	2	97	c.92C>T	c.(91-93)CCG>CTG	p.P31L	MARK4_uc002paz.1_Intron|MARK4_uc002pba.1_Missense_Mutation_p.P31L			Q96L34	MARK4_HUMAN	RecName: Full=MAP/microtubule affinity-regulating kinase 4;          EC=2.7.11.1; AltName: Full=MAP/microtubule affinity-regulating kinase-like 1;	31					microtubule bundle formation|nervous system development|positive regulation of programmed cell death	centrosome|neuron projection	ATP binding|gamma-tubulin binding|microtubule binding|protein serine/threonine kinase activity|tau-protein kinase activity|ubiquitin binding			central_nervous_system(2)|large_intestine(1)	3		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		GACAAAGGCCCGTCCTGGTCC	0.672													6	26	---	---	---	---	PASS
C19orf75	284369	broad.mit.edu	37	19	51768703	51768703	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr19:51768703C>T	uc002pwb.1	+	3	485	c.104C>T	c.(103-105)CCC>CTC	p.P35L	C19orf75_uc010eov.1_Intron|C19orf75_uc010ycw.1_Intron	NM_173635	NP_775906	Q8N7X8	CS075_HUMAN	hypothetical protein LOC284369	35						integral to membrane				ovary(1)|pancreas(1)	2						ATTCCCACACCCTCTGTGCAG	0.587													29	152	---	---	---	---	PASS
NPEPL1	79716	broad.mit.edu	37	20	57290253	57290253	+	Silent	SNP	C	T	T			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr20:57290253C>T	uc010zzs.1	+	12	1538	c.1443C>T	c.(1441-1443)GCC>GCT	p.A481A	NPEPL1_uc010zzr.1_Silent_p.A433A|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Silent_p.A453A|NPEPL1_uc002xzp.2_3'UTR	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	481					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			TCGGTGTGGCCCTCCTGCTGG	0.672													5	9	---	---	---	---	PASS
C21orf99	149992	broad.mit.edu	37	21	14439357	14439357	+	RNA	SNP	C	G	G			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr21:14439357C>G	uc002yja.3	+	10		c.2875C>G				NR_026916				Homo sapiens C21orf99 protein (C21orf99) mRNA, complete cds.												0						TGAATCAGCTCAATCAATCGC	0.274													4	10	---	---	---	---	PASS
PLAC4	191585	broad.mit.edu	37	21	42551425	42551425	+	Missense_Mutation	SNP	C	G	G	rs5019195	by1000genomes	TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr21:42551425C>G	uc002yyz.2	-	1	5742	c.131G>C	c.(130-132)CGT>CCT	p.R44P	BACE2_uc002yyw.2_Intron|BACE2_uc002yyx.2_Intron|BACE2_uc002yyy.2_Intron	NM_182832	NP_878252	Q8WY50	PLAC4_HUMAN	placenta-specific 4	44											0		Prostate(19;2.29e-06)				TGAGGAGTGACGGTGTCTGGG	0.493													6	12	---	---	---	---	PASS
POM121L9P	29774	broad.mit.edu	37	22	24659809	24659809	+	RNA	SNP	G	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr22:24659809G>A	uc002zzs.3	+	7		c.3541G>A			uc011ajp.1_5'Flank	NR_003714				Homo sapiens mRNA; cDNA DKFZp434P211 (from clone DKFZp434P211).												0						CCCTATCTGCGCACCCGGAGG	0.612													3	8	---	---	---	---	PASS
CYP2D6	1565	broad.mit.edu	37	22	42523636	42523636	+	Missense_Mutation	SNP	C	A	A	rs3915951		TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr22:42523636C>A	uc003bce.2	-	7	1076	c.986G>T	c.(985-987)CGC>CTC	p.R329L	uc003bcd.1_Intron|CYP2D6_uc010gyu.2_Missense_Mutation_p.R23L|CYP2D6_uc003bcf.2_Missense_Mutation_p.R278L	NM_000106	NP_000097	Q6NWU0	Q6NWU0_HUMAN	cytochrome P450, family 2, subfamily D,	329							electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen			breast(1)|skin(1)	2						TTGGACACGGCCTGGACAGAC	0.602													4	63	---	---	---	---	PASS
DMD	1756	broad.mit.edu	37	X	31676189	31676189	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chrX:31676189G>A	uc004dda.1	-	54	8189	c.7945C>T	c.(7945-7947)CGG>TGG	p.R2649W	DMD_uc004dcr.1_Missense_Mutation_p.R189W|DMD_uc004dcs.1_Missense_Mutation_p.R189W|DMD_uc004dct.1_Missense_Mutation_p.R189W|DMD_uc004dcu.1_Missense_Mutation_p.R189W|DMD_uc004dcv.1_Missense_Mutation_p.R189W|DMD_uc004dcw.2_Missense_Mutation_p.R1305W|DMD_uc004dcx.2_Missense_Mutation_p.R1308W|DMD_uc004dcz.2_Missense_Mutation_p.R2526W|DMD_uc004dcy.1_Missense_Mutation_p.R2645W|DMD_uc004ddb.1_Missense_Mutation_p.R2641W	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2649	Spectrin 18.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GAATAATCCCGGAGAAGTTTC	0.393													38	113	---	---	---	---	PASS
CDR1	1038	broad.mit.edu	37	X	139866376	139866376	+	Missense_Mutation	SNP	C	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chrX:139866376C>A	uc004fbg.1	-	1	348	c.156G>T	c.(154-156)TTG>TTT	p.L52F	uc004fbf.1_RNA	NM_004065	NP_004056	P51861	CDR1_HUMAN	cerebellar degeneration-related protein 1,	52	23 X 6 AA approximate repeats.|9.										0	Acute lymphoblastic leukemia(192;7.65e-05)	Lung SC(4;0.051)				CCACGTCTTCCAACAAAGCCA	0.438													37	101	---	---	---	---	PASS
DOK7	285489	broad.mit.edu	37	4	3494670	3494671	+	Frame_Shift_Ins	INS	-	A	A			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr4:3494670_3494671insA	uc003ghd.2	+	7	1027_1028	c.957_958insA	c.(955-960)CCCAAGfs	p.P319fs	DOK7_uc003ghe.2_Frame_Shift_Ins_p.P181fs|DOK7_uc003ghf.2_Frame_Shift_Ins_p.P61fs|DOK7_uc003ghg.1_Frame_Shift_Ins_p.P9fs	NM_173660	NP_775931	Q18PE1	DOK7_HUMAN	downstream of tyrosine kinase 7 isoform 1	319_320	Ser-rich.				positive regulation of protein tyrosine kinase activity	cell junction|synapse	insulin receptor binding|protein kinase binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		GGCCACCCCCCAAGCCGCTGCG	0.688													5	3	---	---	---	---	
NEUROD2	4761	broad.mit.edu	37	17	37762300	37762308	+	In_Frame_Del	DEL	GGTCTGGCC	-	-			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr17:37762300_37762308delGGTCTGGCC	uc002hry.2	-	2	745_753	c.545_553delGGCCAGACC	c.(544-555)CGGCCAGACCTA>CTA	p.RPD182del		NM_006160	NP_006151	Q15784	NDF2_HUMAN	neurogenic differentiation 2	182_184					cellular response to calcium ion|cellular response to electrical stimulus|cerebellar cortex development|negative regulation of synapse maturation|positive regulation of calcium-mediated signaling|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of synapse maturation|positive regulation of synaptic plasticity|protein ubiquitination|regulation of transcription from RNA polymerase II promoter	nucleus	E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Lung(15;0.00549)|LUAD - Lung adenocarcinoma(14;0.0664)			TAGGACACTAGGTCTGGCCGCTTGCCGGA	0.603													81	8	---	---	---	---	
ARFGAP3	26286	broad.mit.edu	37	22	43213780	43213780	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CH-5771-01A-21D-1576-08	TCGA-CH-5771-11A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	87e1ffee-a8cd-4d75-937e-ed415cf43546	d75f9a49-dfc3-493b-b9dd-4940d9803cfd	g.chr22:43213780delT	uc003bdd.2	-	10	1116	c.896delA	c.(895-897)AATfs	p.N299fs	ARFGAP3_uc010gzf.2_Frame_Shift_Del_p.N255fs|ARFGAP3_uc011apu.1_Frame_Shift_Del_p.N227fs	NM_014570	NP_055385	Q9NP61	ARFG3_HUMAN	ADP-ribosylation factor GTPase activating	299					intracellular protein transport|protein secretion|regulation of ARF GTPase activity|vesicle-mediated transport	cytosol|Golgi membrane	ARF GTPase activator activity|protein transporter activity|zinc ion binding			breast(1)	1						TGAGTCAACATTTTTTTTGCC	0.224													389	7	---	---	---	---	
