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	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
RERE	473	broad.mit.edu	37	1	8422892	8422892	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:8422892G>T	uc001ape.2	-	17	2563	c.1753C>A	c.(1753-1755)CGC>AGC	p.R585S	RERE_uc001apf.2_Missense_Mutation_p.R585S|RERE_uc010nzx.1_Missense_Mutation_p.R317S|RERE_uc001apd.2_Missense_Mutation_p.R31S	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	585					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		CGACCACTGCGTAGTGTCGAC	0.617000													24	54					1.1804e-14	1.42685e-14	0.003954	1	0
MST1P2	11209	broad.mit.edu	37	1	16974585	16974585	+	RNA	SNP	C	T	T	rs142060675	by1000genomes	TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:16974585C>T	uc009vow.2	+	5		c.1395C>T			MST1P2_uc010ocg.1_RNA|MST1P2_uc010och.1_RNA|MST1P2_uc010oci.1_RNA|MST1P2_uc001azk.2_RNA|MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_RNA|MST1P2_uc001azm.3_RNA					Homo sapiens cDNA FLJ53774 complete cds, moderately similar to Hepatocyte growth factor-like protein precursor.												0						GAACTTCTGCCGGAACCCCGA	0.662000													4	89					0	0	0.001984	0	0
MAST2	23139	broad.mit.edu	37	1	46290209	46290209	+	Silent	SNP	T	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:46290209T>C	uc001cov.2	+	2	565	c.282T>C	c.(280-282)GAT>GAC	p.D94D	MAST2_uc001cow.2_Silent_p.D94D	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	94					regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					TGAGTCAGGATGATTGTAAGT	0.398000													74	142					0	0	0.003610	0	0
WDR3	10885	broad.mit.edu	37	1	118502024	118502024	+	Missense_Mutation	SNP	A	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:118502024A>G	uc010oxe.1	+	27	2852	c.2786A>G	c.(2785-2787)AAG>AGG	p.K929R	WDR3_uc001ehi.2_Intron|SPAG17_uc001ehk.2_Intron	NM_006784	NP_006775	Q9UNX4	WDR3_HUMAN	WD repeat-containing protein 3	929						nuclear membrane|nucleolus				upper_aerodigestive_tract(1)	1	Esophageal squamous(2;0.162)	all_cancers(81;2.72e-05)|Acute lymphoblastic leukemia(138;1e-08)|all_epithelial(167;4.4e-07)|all_lung(203;1.7e-06)|Lung NSC(69;1.98e-05)|Prostate(1639;0.00955)|Breast(1374;0.244)		OV - Ovarian serous cystadenocarcinoma(397;1.39e-08)|Epithelial(280;1.82e-07)|all cancers(265;2.04e-05)|Lung(183;0.0525)|BRCA - Breast invasive adenocarcinoma(282;0.0695)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.185)		GAAGagaagaagaggaagagg	0.308000													20	38					0	0	0.008871	0	0
PDZK1	5174	broad.mit.edu	37	1	145761288	145761288	+	Silent	SNP	T	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:145761288T>C	uc001eon.1	+	8	1198	c.1101T>C	c.(1099-1101)GAT>GAC	p.D367D	NBPF10_uc001emp.3_Intron|PDZK1_uc001eoo.1_Silent_p.D367D|PDZK1_uc010oza.1_Silent_p.D256D	NM_002614	NP_002605	Q5T2W1	NHRF3_HUMAN	PDZ domain containing 1	367					carnitine transport|cell proliferation|drug transport|positive regulation of ion transmembrane transport	brush border membrane|cytoplasm	PDZ domain binding|transporter activity				0	all_hematologic(18;0.00473)|Acute lymphoblastic leukemia(18;0.0786)		KIRC - Kidney renal clear cell carcinoma(6;0.0764)|Kidney(552;0.118)|Colorectal(543;0.229)			GTCCACCAGATACTACAGAGG	0.483000													57	88					0	0	0.003610	0	0
ASH1L	55870	broad.mit.edu	37	1	155491175	155491175	+	Missense_Mutation	SNP	C	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:155491175C>T	uc009wqq.2	-	2	616	c.136G>A	c.(136-138)GAA>AAA	p.E46K	ASH1L_uc001fkt.2_Missense_Mutation_p.E46K|ASH1L_uc009wqr.1_Missense_Mutation_p.E46K	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	46					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			AGGTCCTCTTCCTCCTTTGTG	0.418000													135	275					0	0	0.003610	0	0
SLC41A1	254428	broad.mit.edu	37	1	205770146	205770146	+	Missense_Mutation	SNP	C	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:205770146C>T	uc001hdh.1	-	3	1287	c.415G>A	c.(415-417)GTG>ATG	p.V139M		NM_173854	NP_776253	Q8IVJ1	S41A1_HUMAN	solute carrier family 41 member 1	139						integral to membrane|plasma membrane	magnesium ion transmembrane transporter activity			skin(2)	2	Breast(84;0.0799)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			AGCGCAGGCACTAGGATGAAG	0.562000													34	72					0	0	0.003755	0	0
PIGR	5284	broad.mit.edu	37	1	207109097	207109097	+	Missense_Mutation	SNP	C	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:207109097C>T	uc001hez.2	-	5	1296	c.1112G>A	c.(1111-1113)TGC>TAC	p.C371Y	PIGR_uc009xbz.2_Missense_Mutation_p.C371Y	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	371	Ig-like V-type 4.|Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GTTGTAGGGGCAGAGCACGGC	0.622000											OREG0014186	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	22					0	0	0.003163	0	0
IRF6	3664	broad.mit.edu	37	1	209974723	209974723	+	Silent	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:209974723G>A	uc001hhq.1	-	3	299	c.36C>T	c.(34-36)CCC>CCT	p.P12P	IRF6_uc010psm.1_Intron|IRF6_uc009xct.1_Silent_p.P12P	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	12	IRF tryptophan pentad repeat.				cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		CCACCAGCCAGGGCTTTAGCC	0.607000										HNSCC(57;0.16)			38	84					0	0	0.006999	0	0
LEFTY2	7044	broad.mit.edu	37	1	226127230	226127230	+	Silent	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:226127230G>A	uc001hpt.1	-	3	648	c.568C>T	c.(568-570)CTG>TTG	p.L190L	LEFTY2_uc010pvk.1_Silent_p.L156L|LEFTY2_uc009xek.1_Intron	NM_003240	NP_003231	O00292	LFTY2_HUMAN	endometrial bleeding associated factor	190					cell growth|multicellular organismal development|platelet activation|platelet degranulation|transforming growth factor beta receptor signaling pathway	extracellular space|platelet alpha granule lumen	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)					GGCCGGCTCAGCTGCTGCCAG	0.672000													12	22					0	0	0.001855	0	0
EXOC8	149371	broad.mit.edu	37	1	231472205	231472205	+	Missense_Mutation	SNP	C	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:231472205C>A	uc001huq.2	-	1	1374	c.1287G>T	c.(1285-1287)GAG>GAT	p.E429D		NM_175876	NP_787072	Q8IYI6	EXOC8_HUMAN	exocyst complex 84-kDa subunit	429					exocytosis|protein transport	growth cone|nucleus	protein binding			skin(1)	1	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				TCAAAAATAGCTCACAGGCCT	0.527000													18	61					0.000566183	0.000629092	0.004990	1	0
IRF2BP2	359948	broad.mit.edu	37	1	234744251	234744251	+	Silent	SNP	G	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr1:234744251G>T	uc001hwg.2	-	1	1021	c.990C>A	c.(988-990)GCC>GCA	p.A330A	IRF2BP2_uc009xfw.2_5'Flank|IRF2BP2_uc001hwf.2_Silent_p.A330A	NM_182972	NP_892017	Q7Z5L9	I2BP2_HUMAN	interferon regulatory factor 2 binding protein 2	330					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Ovarian(103;0.0303)	all_cancers(173;0.0236)|Prostate(94;0.0115)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)|Epithelial(3;6.2e-05)			CTGCAGTCAGGGCCGGCTCCT	0.637000													9	19					9.05144e-12	1.08224e-11	0.001855	1	0
MASTL	84930	broad.mit.edu	37	10	27459483	27459483	+	Missense_Mutation	SNP	T	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr10:27459483T>C	uc001itm.2	+	8	2234	c.1595T>C	c.(1594-1596)CTT>CCT	p.L532P	MASTL_uc001itl.2_Missense_Mutation_p.L532P|MASTL_uc009xkw.1_Missense_Mutation_p.L532P|MASTL_uc009xkx.1_RNA	NM_032844	NP_116233	Q96GX5	GWL_HUMAN	microtubule associated serine/threonine	532	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						GCAAAAAACCTTATGTGTGAA	0.313000													39	71					0	0	0.002222	0	0
UNC5B	219699	broad.mit.edu	37	10	73055666	73055666	+	Silent	SNP	C	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr10:73055666C>T	uc001jro.2	+	14	2719	c.2274C>T	c.(2272-2274)CTC>CTT	p.L758L	UNC5B_uc001jrp.2_Silent_p.L747L	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	758	Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						GCCTCTCCCTCCATGACCTCC	0.612000													39	56					0	0	0.002222	0	0
SEMA4G	57715	broad.mit.edu	37	10	102732887	102732887	+	Silent	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr10:102732887G>A	uc010qpt.1	+	3	569	c.126G>A	c.(124-126)GAG>GAA	p.E42E	SEMA4G_uc001krv.2_RNA|SEMA4G_uc001krw.1_Silent_p.E42E|SEMA4G_uc001krx.2_Silent_p.E42E|MIR608_hsa-mir-608|MI0003621_5'Flank	NM_017893	NP_060363	Q9NTN9	SEM4G_HUMAN	semaphorin 4G	42	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3.71e-09)|all cancers(201;2.1e-07)		TCTCCCCAGAGCTCTCTGGGA	0.622000													3	52					0	0	0.004672	0	0
PIK3C2A	5286	broad.mit.edu	37	11	17124313	17124313	+	Missense_Mutation	SNP	A	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr11:17124313A>C	uc001mmq.3	-	23	3813	c.3747T>G	c.(3745-3747)TGT>TGG	p.C1249W	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Missense_Mutation_p.C869W|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	1249	PI3K/PI4K.				cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	TGTGTCGATCACAGATGCCTA	0.383000													35	60					0	0	0.003271	0	0
PLAC1L	219990	broad.mit.edu	37	11	59811100	59811100	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr11:59811100G>A	uc001nol.2	+	2	408	c.223G>A	c.(223-225)GAT>AAT	p.D75N		NM_173801	NP_776162	Q86WS3	PLACL_HUMAN	placenta-specific 1-like precursor	75						extracellular region				ovary(2)|skin(1)	3						TCTTGTTCGTGATTGTGGCAT	0.338000													21	33					0	0	0.002780	0	0
ENDOD1	23052	broad.mit.edu	37	11	94823276	94823276	+	Missense_Mutation	SNP	C	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr11:94823276C>T	uc001pfh.2	+	1	260	c.185C>T	c.(184-186)GCT>GTT	p.A62V		NM_015036	NP_055851	O94919	ENDD1_HUMAN	endonuclease domain containing 1 precursor	62						extracellular region	endonuclease activity|metal ion binding|nucleic acid binding				0		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.00824)				GCGGAGGGTGCTGAGCGCTTC	0.562000													6	10					0	0	0.001984	0	0
ATM	472	broad.mit.edu	37	11	108155202	108155202	+	Splice_Site	SNP	T	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr11:108155202T>C	uc001pkb.1	+	26	4378	c.3993_splice	c.e26+2	p.Q1331_splice	ATM_uc009yxr.1_Splice_Site_p.Q1331_splice|ATM_uc001pkd.3_5'Flank|ATM_uc001pke.1_5'Flank	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1						cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		GGAAAACAGGTATGGCTTCAA	0.348000			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			31	51					0	0	0.001786	0	0
VWF	7450	broad.mit.edu	37	12	6138619	6138619	+	Silent	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr12:6138619G>A	uc001qnn.1	-	22	3106	c.2856C>T	c.(2854-2856)CAC>CAT	p.H952H	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	952	VWFD 3.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CCACCTCAAAGTGAGTCTCAT	0.572000													68	41					0	0	0.003610	0	0
LRRC23	10233	broad.mit.edu	37	12	7014840	7014840	+	Missense_Mutation	SNP	G	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr12:7014840G>C	uc001qrt.3	+	2	435	c.43G>C	c.(43-45)GAT>CAT	p.D15H	LRRC23_uc001qrn.1_Missense_Mutation_p.D15H|LRRC23_uc009zfg.2_Intron|LRRC23_uc001qrp.2_Missense_Mutation_p.D15H|LRRC23_uc001qrq.2_Missense_Mutation_p.D15H|LRRC23_uc001qrr.2_5'UTR|LRRC23_uc001qrs.2_5'UTR|LRRC23_uc009zfh.2_Missense_Mutation_p.D15H	NM_001135217	NP_001128689	Q53EV4	LRC23_HUMAN	leucine rich repeat containing 23 isoform a	15										ovary(1)	1						GCCAGACCAGGATGATTCTga	0.328000													37	94					0	0	0.003755	0	0
C12orf39	80763	broad.mit.edu	37	12	21679409	21679409	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr12:21679409G>A	uc001rfa.1	+	1	154	c.3G>A	c.(1-3)ATG>ATA	p.M1I	C12orf39_uc009ziv.1_5'Flank|C12orf39_uc009ziw.1_5'Flank	NM_030572	NP_085049	Q9BT56	SPXN_HUMAN	spexin precursor	1						extracellular region|nucleus|transport vesicle					0						CGCAGAACATGAAGGTAAGTA	0.303000													10	20					0	0	0.000978	0	0
CMAS	55907	broad.mit.edu	37	12	22218064	22218064	+	Missense_Mutation	SNP	T	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr12:22218064T>A	uc001rfm.2	+	8	1203	c.1124T>A	c.(1123-1125)GTG>GAG	p.V375E	CMAS_uc001rfn.2_RNA	NM_018686	NP_061156	Q8NFW8	NEUA_HUMAN	cytidine monophospho-N-acetylneuraminic acid	375					lipopolysaccharide biosynthetic process	nucleus	N-acylneuraminate cytidylyltransferase activity			ovary(1)|pancreas(1)|skin(1)	3						GGAAATGAAGTGTCTGATGAA	0.403000													110	110					0	0	0.003610	0	0
MLL2	8085	broad.mit.edu	37	12	49416134	49416134	+	Missense_Mutation	SNP	A	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr12:49416134A>C	uc001rta.3	-	52	16341	c.16341T>G	c.(16339-16341)AAT>AAG	p.N5447K		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5447	SET.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGATGCCTCGATTCTAGAAAG	0.512000			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			14	9					0	0	0.001855	0	0
ULK1	8408	broad.mit.edu	37	12	132405713	132405713	+	Silent	SNP	C	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr12:132405713C>G	uc001uje.2	+	27	3298	c.3030C>G	c.(3028-3030)GCC>GCG	p.A1010A		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	1010					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		ACCACAAGGCCCTGCTGCTCC	0.677000													43	37					0	0	0.003610	0	0
CDAN1	146059	broad.mit.edu	37	15	43023981	43023981	+	Missense_Mutation	SNP	C	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr15:43023981C>T	uc001zql.2	-	11	1693	c.1576G>A	c.(1576-1578)GAG>AAG	p.E526K	CDAN1_uc001zqj.2_5'Flank|CDAN1_uc001zqk.2_5'UTR	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	526						integral to membrane	protein binding			ovary(2)	2		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		TCTGGGGCCTCGCCCAAGACG	0.587000													30	56					0	0	0.001786	0	0
GNB5	10681	broad.mit.edu	37	15	52446239	52446239	+	Silent	SNP	C	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr15:52446239C>T	uc002abt.1	-	4	338	c.273G>A	c.(271-273)GGG>GGA	p.G91G	GNB5_uc002abr.1_Silent_p.G49G|GNB5_uc002abs.1_Silent_p.G49G|GNB5_uc002abu.3_Silent_p.G49G	NM_016194	NP_057278	O14775	GBB5_HUMAN	guanine nucleotide-binding protein, beta-5	91						heterotrimeric G-protein complex	GTPase activity|signal transducer activity			lung(1)	1				all cancers(107;0.0163)		TGACAAACTGCCCCAGGGCCT	0.572000													17	38					0	0	0.004007	0	0
HERC1	8925	broad.mit.edu	37	15	64021464	64021464	+	Nonsense_Mutation	SNP	C	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr15:64021464C>T	uc002amp.2	-	16	3273	c.3125G>A	c.(3124-3126)TGG>TAG	p.W1042*	HERC1_uc010uil.1_Intron	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	1042					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						ACTGCCATTCCAAGGACTTTC	0.363000													3	16					0	0	0.000248	0	0
SYNM	23336	broad.mit.edu	37	15	99672333	99672333	+	Silent	SNP	G	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr15:99672333G>T	uc002bup.2	+	6	3888	c.3768G>T	c.(3766-3768)GTG>GTT	p.V1256V	SYNM_uc002buo.2_Intron|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	1256	Tail.|Interaction with DMD and UTRN.|Interaction with TLN1 and VCL.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						AAGAGTCAGTGGGTACCCAGA	0.478000													31	58					1.80694e-10	2.13725e-10	0.001786	1	0
Unknown	0	broad.mit.edu	37	15	102292770	102292770	+	Nonsense_Mutation	SNP	C	T	T	rs149751844	by1000genomes	TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr15:102292770C>T	uc010usj.1	+	4	417	c.358C>T	c.(358-360)CGA>TGA	p.R120*	uc002bxp.3_5'Flank|uc002bxt.2_5'Flank|uc002bxz.3_5'Flank|uc002byd.2_5'Flank|uc002bye.2_5'Flank|uc002byf.1_5'Flank|uc002byg.2_5'Flank|uc002byi.2_5'Flank|uc002byk.2_5'Flank|uc002bym.2_5'Flank|uc002byn.2_5'Flank|uc010usm.1_5'Flank					RecName: Full=Uncharacterized protein C15orf51.; Flags: Fragment;																		AGCGGCGCGACGAGATGCTGC	0.597000													4	20					0	0	0.000602	0	0
AXIN1	8312	broad.mit.edu	37	16	396884	396884	+	Missense_Mutation	SNP	T	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr16:396884T>G	uc002cgp.1	-	2	319	c.142A>C	c.(142-144)AAA>CAA	p.K48Q	AXIN1_uc002cgq.1_Missense_Mutation_p.K48Q	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	48					activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				CCAACACCTTTCCCGGAGCAG	0.627000											OREG0003698	type=REGULATORY REGION|Gene=AXIN1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	38	26					0	0	0.004289	0	0
HAGH	3029	broad.mit.edu	37	16	1869997	1869997	+	Silent	SNP	A	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr16:1869997A>G	uc002cna.2	-	4	740	c.333T>C	c.(331-333)AAT>AAC	p.N111N	HAGH_uc002cmz.2_Silent_p.N63N|HAGH_uc010uvp.1_Silent_p.N111N|HAGH_uc002cnb.1_Silent_p.N63N|HAGH_uc010bry.1_Silent_p.N111N	NM_005326	NP_005317	Q16775	GLO2_HUMAN	hydroxyacylglutathione hydrolase isoform 1	111					glutathione biosynthetic process	cytoplasm|mitochondrial matrix|mitochondrial matrix	hydroxyacylglutathione hydrolase activity|zinc ion binding			ovary(1)	1		Hepatocellular(780;0.00335)			Glutathione(DB00143)	CCAGTTTCTCATTCCCGCCAG	0.617000													25	85					0	0	0.003330	0	0
CREBBP	1387	broad.mit.edu	37	16	3807907	3807907	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr16:3807907G>A	uc002cvv.2	-	18	3716	c.3512C>T	c.(3511-3513)ACA>ATA	p.T1171I	CREBBP_uc002cvw.2_Missense_Mutation_p.T1133I	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1171	Bromo.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GACTCGGGATGTCTTGCGATT	0.502000			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				37	89					0	0	0.004289	0	0
GLYR1	84656	broad.mit.edu	37	16	4895118	4895118	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr16:4895118C>G	uc002cxx.3	-	3	149	c.112G>C	c.(112-114)GGA>CGA	p.G38R	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_5'UTR|GLYR1_uc002cya.2_Missense_Mutation_p.G38R|GLYR1_uc010uxv.1_Missense_Mutation_p.G38R|UBN1_uc010uxw.1_5'Flank|UBN1_uc002cyb.2_5'Flank	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	38	PWWP.				pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						CATTTCTTTCCGCGAGGTTTC	0.463000													106	101					0	0	0.003610	0	0
PDXDC1	23042	broad.mit.edu	37	16	15122744	15122744	+	Missense_Mutation	SNP	T	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr16:15122744T>G	uc002dda.3	+	15	1438	c.1214T>G	c.(1213-1215)TTT>TGT	p.F405C	PDXDC1_uc010uzl.1_Missense_Mutation_p.F390C|PDXDC1_uc010uzm.1_Missense_Mutation_p.F314C|PDXDC1_uc002dcz.2_Missense_Mutation_p.F382C|PDXDC1_uc002ddb.3_Missense_Mutation_p.F378C|PDXDC1_uc010uzn.1_Missense_Mutation_p.F377C|PDXDC1_uc002ddc.2_Missense_Mutation_p.F405C	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain	405					carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GATCCGGTGTTTAAAGCCGTC	0.552000													3	76					0	0	0.001168	0	0
PALB2	79728	broad.mit.edu	37	16	23646368	23646368	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr16:23646368G>A	uc002dlx.1	-	4	1699	c.1499C>T	c.(1498-1500)TCT>TTT	p.S500F		NM_024675	NP_078951	Q86YC2	PALB2_HUMAN	partner and localizer of BRCA2	500					double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)		TGCCTTCCTAGACAAGTCATT	0.473000			F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				54	158					0	0	0.003610	0	0
CENPT	80152	broad.mit.edu	37	16	67863889	67863889	+	Missense_Mutation	SNP	T	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr16:67863889T>A	uc002eun.3	-	12	1514	c.965A>T	c.(964-966)GAA>GTA	p.E322V	CENPT_uc002eum.3_Missense_Mutation_p.E322V|CENPT_uc010vkc.1_Missense_Mutation_p.E80V|CENPT_uc010vkd.1_Missense_Mutation_p.E75V|CENPT_uc010vke.1_3'UTR	NM_025082	NP_079358	Q96BT3	CENPT_HUMAN	centromere protein T	322					mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleus	DNA binding				0		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00429)|Epithelial(162;0.019)|all cancers(182;0.124)		GGGCTCTACTTCATCTTCTCC	0.532000													73	199					0	0	0.003610	0	0
KDM6B	23135	broad.mit.edu	37	17	7755333	7755333	+	Missense_Mutation	SNP	G	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr17:7755333G>C	uc002giw.1	+	18	4606	c.4230G>C	c.(4228-4230)TGG>TGC	p.W1410C	KDM6B_uc002gix.2_Missense_Mutation_p.W712C	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	1410	JmjC.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						ACTGCGAGTGGTTCGCGGTGC	0.627000											OREG0024145	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	45					0	0	0.001368	0	0
KRT33A	3883	broad.mit.edu	37	17	39505660	39505660	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr17:39505660C>G	uc002hwk.1	-	2	406	c.369G>C	c.(367-369)GAG>GAC	p.E123D		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	123	Rod.|Coil 1B.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				GCCTGGCATTCTCAGACTTGC	0.478000													24	33					0	0	0.007291	0	0
SCRN2	90507	broad.mit.edu	37	17	45916322	45916322	+	Missense_Mutation	SNP	C	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr17:45916322C>A	uc002imd.2	-	5	733	c.607G>T	c.(607-609)GCC>TCC	p.A203S	SCRN2_uc002imc.2_Missense_Mutation_p.A211S|SCRN2_uc002imf.2_Missense_Mutation_p.A203S|SCRN2_uc002ime.2_RNA	NM_138355	NP_612364	Q96FV2	SCRN2_HUMAN	secernin 2 isoform 1	203					proteolysis		dipeptidase activity			ovary(1)	1						GGGTGTTGGGCCGAGATGTCC	0.552000													51	97					2.29192e-23	2.93152e-23	0.003610	1	0
AATK	9625	broad.mit.edu	37	17	79094413	79094413	+	Missense_Mutation	SNP	A	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr17:79094413A>C	uc010dia.2	-	11	3403	c.3323T>G	c.(3322-3324)CTG>CGG	p.L1108R	AATK_uc010dhz.2_Intron	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	1108	Pro-rich.					integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			TTCTGATCTCAGCGGAACCGG	0.692000													3	8					0	0	0.004672	0	0
NARF	26502	broad.mit.edu	37	17	80443450	80443450	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr17:80443450G>A	uc002kfg.3	+	10	1189	c.1049G>A	c.(1048-1050)CGA>CAA	p.R350Q	NARF_uc002kff.3_Missense_Mutation_p.R291Q|NARF_uc010dit.2_Missense_Mutation_p.R396Q|NARF_uc002kfj.3_Missense_Mutation_p.R302Q|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Missense_Mutation_p.R396Q|NARF_uc002kfk.2_RNA	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	350						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			TATGGCTTTCGAAACATCCAG	0.493000													14	109					0	0	0.002450	0	0
EPB41L3	23136	broad.mit.edu	37	18	5394764	5394764	+	Missense_Mutation	SNP	T	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr18:5394764T>G	uc002kmt.1	-	22	3268	c.3182A>C	c.(3181-3183)AAA>ACA	p.K1061T	EPB41L3_uc010wzh.1_Intron|EPB41L3_uc002kmu.1_Missense_Mutation_p.K839T|EPB41L3_uc010dkq.1_Missense_Mutation_p.K730T|EPB41L3_uc002kms.1_Missense_Mutation_p.K296T|EPB41L3_uc010wze.1_Missense_Mutation_p.K366T|EPB41L3_uc010wzf.1_Missense_Mutation_p.K358T|EPB41L3_uc010wzg.1_Missense_Mutation_p.K333T|EPB41L3_uc010dkr.2_Missense_Mutation_p.K453T	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	1061	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						GTGCTGCTCTTTGGCCTCTTT	0.498000													39	67					0	0	0.007835	0	0
STK11	6794	broad.mit.edu	37	19	1223168	1223168	+	Missense_Mutation	SNP	C	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr19:1223168C>T	uc002lrl.1	+	8	2220	c.1105C>T	c.(1105-1107)CCC>TCC	p.P369S		NM_000455	NP_000446	Q15831	STK11_HUMAN	serine/threonine protein kinase 11	369					anoikis|cell cycle arrest|energy reserve metabolic process|insulin receptor signaling pathway|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.0?(19)		lung(174)|cervix(35)|skin(15)|large_intestine(12)|pancreas(6)|gastrointestinal_tract_(site_indeterminate)(5)|stomach(4)|ovary(4)|breast(2)|upper_aerodigestive_tract(1)|testis(1)|liver(1)|biliary_tract(1)|small_intestine(1)|urinary_tract(1)|oesophagus(1)|prostate(1)|kidney(1)	266		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Renal(1328;0.0183)|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)|Lung(535;0.00942)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTCACGGTGCCCGGTGAGTC	0.642000		14	D|Mis|N|F|S		NSCLC|pancreatic	jejunal harmartoma|ovarian|testicular|pancreatic			Peutz-Jeghers_syndrome	TSP Lung(3;<1E-08)			8	11					0	0	0.004482	0	0
ZNF433	163059	broad.mit.edu	37	19	12126384	12126384	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr19:12126384G>T	uc002msy.1	-	4	1469	c.1298C>A	c.(1297-1299)TCT>TAT	p.S433Y	uc002msx.1_Intron|ZNF433_uc002msz.1_Missense_Mutation_p.S398Y	NM_001080411	NP_001073880	Q8N7K0	ZN433_HUMAN	zinc finger protein 433	433	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAGTGAGGCAGATCTGAAGGC	0.418000													28	67					3.80469e-20	4.70243e-20	0.001786	1	0
KIAA1683	80726	broad.mit.edu	37	19	18368726	18368726	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr19:18368726C>G	uc002nin.2	-	4	3023	c.2807G>C	c.(2806-2808)GGC>GCC	p.G936A	PDE4C_uc002nil.3_5'Flank|KIAA1683_uc010ebn.2_Missense_Mutation_p.G1123A|KIAA1683_uc010xqe.1_Missense_Mutation_p.G890A|KIAA1683_uc010xqf.1_RNA	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	936	IQ 2.					mitochondrion				ovary(2)	2						GCCACGGACGCCCGCCTGGAT	0.672000													35	68					0	0	0.004878	0	0
U2AF2	11338	broad.mit.edu	37	19	56180114	56180114	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr19:56180114G>A	uc002qlu.2	+	9	1956	c.901G>A	c.(901-903)GGC>AGC	p.G301S	U2AF2_uc002qlt.2_Missense_Mutation_p.G301S	NM_007279	NP_009210	P26368	U2AF2_HUMAN	U2 (RNU2) small nuclear RNA auxiliary factor 2	301	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	nucleoplasm|spliceosomal complex	enzyme binding|nucleotide binding|RNA binding			ovary(1)	1		Colorectal(82;0.00244)|Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		GCTCTCCAAGGGCTACGCCTT	0.617000													26	47					0	0	0.004656	0	0
C2orf73	129852	broad.mit.edu	37	2	54587528	54587528	+	Silent	SNP	G	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr2:54587528G>T	uc002rxt.1	+	5	735	c.693G>T	c.(691-693)CTG>CTT	p.L231L	C2orf73_uc010yor.1_Silent_p.L173L|C2orf73_uc002rxs.1_Silent_p.L110L|C2orf73_uc010yos.1_RNA	NM_001100396	NP_001093866	Q8N5S3	CB073_HUMAN	hypothetical protein LOC129852	231											0						CTCAGGAGCTGTTAGAGCCTA	0.493000													6	21					0.000157383	0.000178476	0.003080	1	0
TBC1D20	128637	broad.mit.edu	37	20	419913	419913	+	Silent	SNP	G	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr20:419913G>T	uc002wds.2	-	7	933	c.795C>A	c.(793-795)GTC>GTA	p.V265V	TBC1D20_uc002wdv.2_Silent_p.V88V|TBC1D20_uc002wdt.2_RNA|TBC1D20_uc002wdu.2_RNA	NM_144628	NP_653229	Q96BZ9	TBC20_HUMAN	TBC1 domain family, member 20	265					interspecies interaction between organisms	integral to membrane|intracellular	Rab GTPase activator activity			central_nervous_system(1)	1		all_epithelial(17;0.228)|Breast(17;0.231)				CACAGTCCAGGACTTCCTGCT	0.562000													39	26					7.05121e-23	8.91533e-23	0.002522	1	0
NCOA6	23054	broad.mit.edu	37	20	33345756	33345756	+	Silent	SNP	T	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr20:33345756T>C	uc002xav.2	-	8	3366	c.795A>G	c.(793-795)CAA>CAG	p.Q265Q	NCOA6_uc002xaw.2_Silent_p.Q265Q|NCOA6_uc010gew.1_Silent_p.Q222Q	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	265	TBP/GTF2A-binding region.|NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						gttgttgttgttgctgctgct	0.313000													4	78					0	0	0.000602	0	0
FAM65C	140876	broad.mit.edu	37	20	49219116	49219116	+	Silent	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr20:49219116G>A	uc002xvm.2	-	13	1458	c.1140C>T	c.(1138-1140)CTC>CTT	p.L380L	FAM65C_uc010zyt.1_Silent_p.L384L|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Silent_p.L380L	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	380										ovary(2)	2						ACAGGTAGCTGAGGATGGAGG	0.637000													22	75					0	0	0.001882	0	0
CYP24A1	1591	broad.mit.edu	37	20	52773943	52773943	+	Missense_Mutation	SNP	T	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr20:52773943T>C	uc002xwv.2	-	10	1816	c.1418A>G	c.(1417-1419)CAT>CGT	p.H473R	CYP24A1_uc002xwu.1_Missense_Mutation_p.H331R|CYP24A1_uc002xww.2_Intron	NM_000782	NP_000773	Q07973	CP24A_HUMAN	cytochrome P450 family 24 subfamily A	473					hormone biosynthetic process|osteoblast differentiation|vitamin D catabolic process|vitamin D receptor signaling pathway|xenobiotic metabolic process	mitochondrial inner membrane	1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity|electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		STAD - Stomach adenocarcinoma(23;0.206)		Calcidiol(DB00146)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	AAGAGCCAAATGCAGTTGAAG	0.423000													38	35					0	0	0.006230	0	0
LIME1	54923	broad.mit.edu	37	20	62369217	62369217	+	Missense_Mutation	SNP	C	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr20:62369217C>T	uc002ygp.3	+	3	246	c.142C>T	c.(142-144)CGG>TGG	p.R48W	ZGPAT_uc002ygn.3_RNA|LIME1_uc011abi.1_Missense_Mutation_p.R48W|SLC2A4RG_uc002ygq.2_5'Flank|SLC2A4RG_uc002ygr.2_5'Flank	NM_017806	NP_060276	Q9H400	LIME1_HUMAN	Lck interacting transmembrane adaptor 1	48	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					GCGGAGGCAGCGGGCGAGGCT	0.756000													3	20					0	0	0.000248	0	0
APP	351	broad.mit.edu	37	21	27348294	27348294	+	Silent	SNP	A	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr21:27348294A>C	uc002ylz.2	-	10	1472	c.1272T>G	c.(1270-1272)CCT>CCG	p.P424P	APP_uc010glk.2_Silent_p.P400P|APP_uc002yma.2_Silent_p.P405P|APP_uc011ach.1_Silent_p.P368P|APP_uc002ymb.2_Silent_p.P349P|APP_uc010glj.2_Silent_p.P293P|APP_uc011aci.1_Silent_p.P314P	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	424	Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				TATCAGCTTTAGGCAAGTTCT	0.383000													25	52					0	0	0.003954	0	0
SUMF1	285362	broad.mit.edu	37	3	4490972	4490972	+	Missense_Mutation	SNP	A	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr3:4490972A>C	uc003bpz.1	-	3	522	c.497T>G	c.(496-498)GTG>GGG	p.V166G	SUMF1_uc003bps.1_RNA|SUMF1_uc011ass.1_Intron|SUMF1_uc010hby.1_Missense_Mutation_p.V166G|SUMF1_uc011ast.1_Intron	NM_182760	NP_877437	Q8NBK3	SUMF1_HUMAN	sulfatase modifying factor 1 isoform 1	166						endoplasmic reticulum lumen	metal ion binding|oxidoreductase activity			upper_aerodigestive_tract(1)	1		Melanoma(143;0.068)|Colorectal(144;0.233)		Epithelial(13;0.0147)|OV - Ovarian serous cystadenocarcinoma(96;0.0444)|all cancers(10;0.0549)		ATTGGTCTTCACTTGCTCACT	0.393000													71	136					0	0	0.003610	0	0
ANO10	55129	broad.mit.edu	37	3	43618738	43618738	+	Missense_Mutation	SNP	T	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr3:43618738T>A	uc003cmv.2	-	6	779	c.608A>T	c.(607-609)TAC>TTC	p.Y203F	ANO10_uc011azs.1_Missense_Mutation_p.Y203F|ANO10_uc003cmw.2_Missense_Mutation_p.Y137F|ANO10_uc010hil.2_Intron|ANO10_uc011azt.1_Missense_Mutation_p.Y92F	NM_018075	NP_060545	Q9NW15	ANO10_HUMAN	transmembrane protein 16K	203	Cytoplasmic (Potential).				cell death	chloride channel complex	chloride channel activity			ovary(2)	2						TTCCCCAAAGTAGCCACGAAT	0.343000													14	30					0	0	0.004007	0	0
ARHGEF3	50650	broad.mit.edu	37	3	56787577	56787577	+	Silent	SNP	G	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr3:56787577G>C	uc003dig.2	-	4	562	c.393C>G	c.(391-393)TCC>TCG	p.S131S	ARHGEF3_uc011bew.1_Silent_p.S131S|ARHGEF3_uc003dih.2_Silent_p.S163S|ARHGEF3_uc011bev.1_Silent_p.S102S|ARHGEF3_uc003dif.2_Silent_p.S137S|ARHGEF3_uc010hmy.1_5'UTR|ARHGEF3_uc003dii.2_Silent_p.S131S	NM_019555	NP_062455	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor 3 isoform	131	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0161)|Kidney(284;0.019)|OV - Ovarian serous cystadenocarcinoma(275;0.193)		CTTCTCCTTGGGAAAGCTCAA	0.363000													17	60					0	0	0.006122	0	0
EAF2	55840	broad.mit.edu	37	3	121591418	121591418	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr3:121591418G>A	uc003een.2	+	5	618	c.519G>A	c.(517-519)ATG>ATA	p.M173I	EAF2_uc003eeo.2_Missense_Mutation_p.M43I	NM_018456	NP_060926	Q96CJ1	EAF2_HUMAN	ELL associated factor 2	173					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	protein binding				0				GBM - Glioblastoma multiforme(114;0.0972)		TGGACCAGATGAGTAGTTGTG	0.303000													116	100					0	0	0.003610	0	0
COL6A6	131873	broad.mit.edu	37	3	130287032	130287032	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr3:130287032G>A	uc010htl.2	+	5	2016	c.1985G>A	c.(1984-1986)GGT>GAT	p.G662D		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	662	Nonhelical region.|VWFA 4.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GTGCAAATTGGTGTAGTCCAG	0.408000													63	181					0	0	0.003610	0	0
CP	1356	broad.mit.edu	37	3	148930432	148930432	+	Missense_Mutation	SNP	T	C	C	rs141532762		TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr3:148930432T>C	uc003ewy.3	-	2	453	c.200A>G	c.(199-201)TAT>TGT	p.Y67C	CP_uc011bnr.1_RNA|CP_uc003ewz.2_Missense_Mutation_p.Y67C	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	67	F5/8 type A 1.|Plastocyanin-like 1.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	GGCCTTCTTATATAGTCTCCC	0.388000													25	33					0	0	0.005443	0	0
CLCN2	1181	broad.mit.edu	37	3	184071155	184071155	+	Silent	SNP	C	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr3:184071155C>A	uc003foi.2	-	17	2035	c.1911G>T	c.(1909-1911)GGG>GGT	p.G637G	CLCN2_uc003foh.2_Silent_p.G161G|CLCN2_uc010hya.1_Silent_p.G620G|CLCN2_uc011brl.1_Silent_p.G637G|CLCN2_uc011brm.1_Silent_p.G593G	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	637	Cytoplasmic (By similarity).|CBS 1.					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	TCAGCTGGGCCCCCAACAATG	0.637000													31	34					7.26314e-15	8.87717e-15	0.007291	1	0
HTT	3064	broad.mit.edu	37	4	3156098	3156098	+	Missense_Mutation	SNP	C	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr4:3156098C>A	uc011bvq.1	+	28	3728	c.3583C>A	c.(3583-3585)CAA>AAA	p.Q1195K		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1193					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		ACCAGGAGAACAAGCATCTGT	0.488000													8	22					0.000274275	0.00030786	0.004482	1	0
TECRL	253017	broad.mit.edu	37	4	65180367	65180367	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr4:65180367G>A	uc003hcv.2	-	5	659	c.550C>T	c.(550-552)CAC>TAC	p.H184Y	TECRL_uc003hcw.2_Missense_Mutation_p.H184Y	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	184					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						ATCACTTACTGTACCACTGGG	0.294000													10	19					0	0	0.006214	0	0
SEPT11	55752	broad.mit.edu	37	4	77941678	77941678	+	Missense_Mutation	SNP	T	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr4:77941678T>G	uc003hkj.2	+	7	970	c.808T>G	c.(808-810)TTT>GTT	p.F270V	SEPT11_uc010ijh.1_Missense_Mutation_p.F262V|SEPT11_uc011cca.1_Missense_Mutation_p.F280V|SEPT11_uc003hkk.1_Missense_Mutation_p.F70V	NM_018243	NP_060713	Q9NVA2	SEP11_HUMAN	septin 11	270					cell cycle|cell division|protein heterooligomerization	axon|cell junction|dendritic spine|septin complex|stress fiber|synapse	GTP binding|protein binding				0						TCATTGCGATTTTGTGAAACT	0.468000													43	80					0	0	0.003610	0	0
NIPBL	25836	broad.mit.edu	37	5	36984988	36984988	+	Missense_Mutation	SNP	A	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr5:36984988A>T	uc003jkl.3	+	10	2205	c.1706A>T	c.(1705-1707)GAA>GTA	p.E569V	NIPBL_uc003jkk.3_Missense_Mutation_p.E569V|NIPBL_uc003jkm.1_Missense_Mutation_p.E448V	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	569					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AAGCCTGAAGAAATCAAACAA	0.393000													62	96					0	0	0.003610	0	0
ARHGAP26	23092	broad.mit.edu	37	5	142416823	142416823	+	Missense_Mutation	SNP	A	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr5:142416823A>G	uc011dbj.1	+	13	1242	c.1207A>G	c.(1207-1209)AGA>GGA	p.R403G	ARHGAP26_uc003lmt.2_Missense_Mutation_p.R403G|ARHGAP26_uc003lmw.2_Missense_Mutation_p.R403G	NM_015071	NP_055886	Q9UNA1	RHG26_HUMAN	GTPase regulator associated with the focal	403	Rho-GAP.				actin cytoskeleton organization|filopodium assembly|nervous system development|small GTPase mediated signal transduction	cytoskeleton|cytosol|focal adhesion	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(1)	1		all_hematologic(541;0.0416)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGTGGAAACCAGAGGTAAAGT	0.468000													39	32					0	0	0.004878	0	0
JAKMIP2	9832	broad.mit.edu	37	5	147000262	147000262	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr5:147000262G>T	uc003loq.1	-	18	2491	c.2109C>A	c.(2107-2109)GAC>GAA	p.D703E	JAKMIP2_uc011dbx.1_Missense_Mutation_p.D661E|JAKMIP2_uc003lor.1_Missense_Mutation_p.D682E|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.D703E	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	703	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTTTCTGTAGTCTAGTTCTT	0.388000													72	68					1.63007e-36	2.13462e-36	0.003610	1	0
C5orf41	153222	broad.mit.edu	37	5	172518026	172518026	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr5:172518026C>G	uc003mch.2	+	4	1148	c.844C>G	c.(844-846)CTT>GTT	p.L282V	C5orf41_uc003mcg.2_Missense_Mutation_p.L282V|C5orf41_uc003mcf.2_Missense_Mutation_p.L282V|C5orf41_uc011dfd.1_Missense_Mutation_p.L282V	NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor	282							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GATGGAGCCTCTTCAAGGTCA	0.522000													25	59					0	0	0.003954	0	0
SPDEF	25803	broad.mit.edu	37	6	34512076	34512076	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr6:34512076G>T	uc003ojq.1	-	2	572	c.157C>A	c.(157-159)CAG>AAG	p.Q53K	SPDEF_uc011dsq.1_Missense_Mutation_p.Q53K	NM_012391	NP_036523	O95238	SPDEF_HUMAN	SAM pointed domain containing ets transcription	53					negative regulation of survival gene product expression|negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(3)|ovary(1)|central_nervous_system(1)	5						GACAGGCCCTGCTCGGGCGTG	0.687000													15	41					3.41278e-10	3.99368e-10	0.004990	1	0
SNX9	51429	broad.mit.edu	37	6	158288583	158288583	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr6:158288583G>A	uc003qqv.1	+	2	190	c.17G>A	c.(16-18)CGG>CAG	p.R6Q		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	6	SH3.				cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		TGATAGGCTCGGGTTATGTAT	0.393000													20	40					0	0	0.001523	0	0
LOC493754	493754	broad.mit.edu	37	7	66010596	66010596	+	RNA	SNP	C	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr7:66010596C>A	uc010lac.1	-	4		c.617G>T			LOC493754_uc010lad.2_RNA|LOC493754_uc011kdx.1_RNA					Homo sapiens cDNA FLJ14309 fis, clone PLACE3000221.												0						ACGACATCCACTGGCTGGAGA	0.403000													29	29					2.36697e-06	2.74071e-06	0.007291	1	0
MET	4233	broad.mit.edu	37	7	116417463	116417463	+	Missense_Mutation	SNP	C	T	T	rs121913244		TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr7:116417463C>T	uc003vij.2	+	16	3467	c.3280C>T	c.(3280-3282)CAT>TAT	p.H1094Y	MET_uc010lkh.2_Missense_Mutation_p.H1112Y|MET_uc011knj.1_Missense_Mutation_p.H664Y	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	1094	Protein kinase.|Cytoplasmic (Potential).		H -> R (in RCCP; causes malignant transformation in cell lines).|H -> L (in RCCP; constitutive autophosphorylation; causes malignant transformation in cell lines).|H -> Y (in RCCP; constitutive autophosphorylation; causes malignant transformation in cell lines).		axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding	p.Q1029_G1105del(1)|p.H1112Y(1)		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)			TTGTGTATATCATGGGACTTT	0.343000			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				114	97					0	0	0.003610	0	0
CTTNBP2	83992	broad.mit.edu	37	7	117365303	117365303	+	Missense_Mutation	SNP	G	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr7:117365303G>C	uc003vjf.2	-	18	4156	c.4064C>G	c.(4063-4065)TCT>TGT	p.S1355C		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	1355										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		CCACAGCTTAGACATCCACCT	0.468000													68	236					0	0	0.003610	0	0
MLL3	58508	broad.mit.edu	37	7	151917756	151917756	+	Missense_Mutation	SNP	C	A	A			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr7:151917756C>A	uc003wla.2	-	23	3783	c.3564G>T	c.(3562-3564)CAG>CAT	p.Q1188H	MLL3_uc003wkz.2_Missense_Mutation_p.Q249H	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1188					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CTGTGAGGCTCTGTAACTGAG	0.408000			N		medulloblastoma								55	64					7.82978e-24	1.01327e-23	0.003610	1	0
RP1L1	94137	broad.mit.edu	37	8	10470573	10470573	+	Silent	SNP	C	T	T	rs73201157	by1000genomes	TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr8:10470573C>T	uc003wtc.2	-	4	1264	c.1035G>A	c.(1033-1035)AGG>AGA	p.R345R		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	345					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GGGCGCTGGCCCTGCCCATCC	0.657000													5	113					0	0	0.000602	0	0
CDH17	1015	broad.mit.edu	37	8	95201459	95201459	+	Missense_Mutation	SNP	A	C	C			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr8:95201459A>C	uc003ygh.2	-	3	231	c.106T>G	c.(106-108)TTT>GTT	p.F36V	CDH17_uc011lgo.1_Missense_Mutation_p.F36V|CDH17_uc011lgp.1_Missense_Mutation_p.F36V	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	36	Extracellular (Potential).|Cadherin 1.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			TAAATAGAAAATGTCATGGGT	0.403000													63	14					0	0	0.003610	0	0
BNC2	54796	broad.mit.edu	37	9	16419221	16419221	+	Silent	SNP	A	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr9:16419221A>G	uc003zml.2	-	7	3206	c.3066T>C	c.(3064-3066)TCT>TCC	p.S1022S	BNC2_uc011lmw.1_Silent_p.S927S|BNC2_uc003zmm.2_3'UTR|BNC2_uc011lmv.1_3'UTR|BNC2_uc003zmj.2_3'UTR|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Silent_p.S809S	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	1022					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		TGAACATAAGAGATCCTGAAA	0.547000													24	57					0	0	0.005443	0	0
GRIN3A	116443	broad.mit.edu	37	9	104449145	104449145	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr9:104449145C>G	uc004bbp.1	-	2	1638	c.1037G>C	c.(1036-1038)GGG>GCG	p.G346A	GRIN3A_uc004bbq.1_Missense_Mutation_p.G346A	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	346	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	GGGCATGACCCCAAACTGGGT	0.507000													30	33					0	0	0.001786	0	0
Unknown	0	broad.mit.edu	37	11	43283606	43283606	+	RNA	DEL	A	-	-			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr11:43283606delA	uc001mxe.1	-	2		c.1330delT								Homo sapiens cDNA FLJ44864 fis, clone BRALZ2013621, moderately similar to Heterogeneous nuclear ribonucleoprotein K.																		AAGCAAATGTAAAAAAAAAAA	0.388													3	4	---	---	---	---					
CLIP1	6249	broad.mit.edu	37	12	122812693	122812694	+	Frame_Shift_Ins	INS	-	T	T	rs77289752		TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr12:122812693_122812694insT	uc001ucg.1	-	16	3155_3156	c.3049_3050insA	c.(3049-3051)ACAfs	p.T1017fs	CLIP1_uc001uch.1_Frame_Shift_Ins_p.T1006fs|CLIP1_uc001uci.1_Frame_Shift_Ins_p.T971fs|CLIP1_uc001ucj.1_Frame_Shift_Ins_p.T592fs	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	1017	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		GTTGTGGCTTGTTTCCATTTTC	0.505													9	293	---	---	---	---					
EXOC5	10640	broad.mit.edu	37	14	57702498	57702498	+	Frame_Shift_Del	DEL	A	-	-			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr14:57702498delA	uc001xct.2	-	7	851	c.600delT	c.(598-600)TTTfs	p.F200fs	EXOC5_uc010trg.1_Frame_Shift_Del_p.F145fs|EXOC5_uc010trh.1_Frame_Shift_Del_p.F135fs	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	200					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						GAGCACTGGTAAACTCCTGAA	0.353													2	4	---	---	---	---					
MEP1B	4225	broad.mit.edu	37	18	29787415	29787415	+	Frame_Shift_Del	DEL	A	-	-			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr18:29787415delA	uc002kxj.3	+	8	795	c.748delA	c.(748-750)AATfs	p.N250fs		NM_005925	NP_005916	Q16820	MEP1B_HUMAN	meprin A beta precursor	250	Extracellular (Potential).|Metalloprotease.				digestion|proteolysis	extracellular space|integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)	2						CCTAAAGTTGAATCAACTGTA	0.398													8	16	---	---	---	---					
GPR113	165082	broad.mit.edu	37	2	26533773	26533773	+	Frame_Shift_Del	DEL	C	-	-			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr2:26533773delC	uc002rhe.3	-	11	2823	c.2823delG	c.(2821-2823)GGGfs	p.G941fs	GPR113_uc010yky.1_Frame_Shift_Del_p.G872fs|GPR113_uc002rhb.1_Frame_Shift_Del_p.G544fs|GPR113_uc010eyk.1_Frame_Shift_Del_p.G742fs|GPR113_uc002rhc.1_Frame_Shift_Del_p.G544fs|GPR113_uc002rhd.1_RNA	NM_001145168	NP_001138640	Q8IZF5	GP113_HUMAN	G-protein coupled receptor 113 isoform 1	941	Helical; Name=5; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTAGTACCAGCCCATTCACGC	0.597													18	21	---	---	---	---					
TMF1	7110	broad.mit.edu	37	3	69096768	69096770	+	In_Frame_Del	DEL	GAA	-	-			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr3:69096768_69096770delGAA	uc003dnn.2	-	2	1333_1335	c.1086_1088delTTC	c.(1084-1089)TCTTCA>TCA	p.362_363SS>S	TMF1_uc011bfx.1_In_Frame_Del_p.362_363SS>S	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	362_363					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		CTTTGGAGTTGAAGAATTAACTA	0.355													27	71	---	---	---	---					
PODXL	5420	broad.mit.edu	37	7	131241030	131241035	+	In_Frame_Del	DEL	GGCGAC	-	-	rs11277659		TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr7:131241030_131241035delGGCGAC	uc003vqw.3	-	1	342_347	c.84_89delGTCGCC	c.(82-90)CCGTCGCCC>CCC	p.28_30PSP>P	PODXL_uc003vqx.3_In_Frame_Del_p.28_30PSP>P	NM_001018111	NP_001018121	O00592	PODXL_HUMAN	podocalyxin-like isoform 1 precursor	28_30	Extracellular (Potential).				cell adhesion|epithelial tube formation|negative regulation of cell-cell adhesion|positive regulation of cell migration|positive regulation of cell-cell adhesion mediated by integrin|regulation of microvillus assembly	actin cytoskeleton|apical plasma membrane|centrosome|filopodium|integral to plasma membrane|lamellipodium|membrane raft|microvillus membrane|nucleolus|ruffle				breast(2)|pancreas(1)	3	Melanoma(18;0.162)					ATTCTGGGAGggcgacggcgacggcg	0.573													3	4	---	---	---	---					
FAM160B2	64760	broad.mit.edu	37	8	21953846	21953847	+	Splice_Site	DEL	AG	-	-			TCGA-A4-7997-01A-11D-2201-08	TCGA-A4-7997-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	af158dec-5dad-4b6e-ad38-057aa9b6203c	df84187c-0ad5-45ed-9df9-6402364de115	g.chr8:21953846_21953847delAG	uc011kyx.1	+	3	176	c.125_splice	c.e3-1	p.D42_splice	FAM160B2_uc011kyw.1_3'UTR|FAM160B2_uc011kyy.1_Splice_Site	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16												0						AAACATCATTAGATGAAAGCAC	0.564													5	2	---	---	---	---					
