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_alt_allele	validation_method	validation_status	validation_tumor_sample	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
HLA-C	3107	broad.mit.edu	37	6	31239513	31239513	+	Missense_Mutation	SNP	C	C	T	rs41548913		TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr6:31239513C>T	ENST00000383329.3	-	2	220	c.206G>A	c.(205-207)gGg>gAg	p.G69E	HLA-C_ENST00000376228.5_Missense_Mutation_p.G69E			Q9TNN7	1C05_HUMAN	major histocompatibility complex, class I, C	69	Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex		p.G69E(5)		central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						CCGCGGCTCCCCTCTCGGACT	0.697000													3	42					0	0	1	0	0
ATM	472	broad.mit.edu	37	11	108173735	108173735	+	Silent	SNP	A	A	G			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr11:108173735A>G	ENST00000278616.4	+	36	5860	c.5475A>G	c.(5473-5475)caA>caG	p.Q1825Q	ATM_ENST00000452508.2_Silent_p.Q1825Q	NM_000051.3	NP_000042.3	Q13315	ATM_HUMAN	ataxia telangiectasia mutated	1825					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			NS(4)|breast(23)|central_nervous_system(11)|endometrium(10)|haematopoietic_and_lymphoid_tissue(227)|kidney(19)|large_intestine(53)|liver(5)|lung(62)|ovary(6)|pancreas(4)|prostate(13)|skin(4)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	448		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)		AAATTCTTCAATTATTAAAGC	0.333000			"""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)			6	60					0	0	1	0	0
CCDC70	83446	broad.mit.edu	37	13	52440136	52440136	+	Missense_Mutation	SNP	G	G	A	rs78877659	by1000genomes	TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr13:52440136G>A	ENST00000242819.4	+	2	918	c.622G>A	c.(622-624)Gga>Aga	p.G208R		NM_031290.2	NP_112580.2	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70	208						extracellular region|plasma membrane				breast(1)|large_intestine(4)|lung(7)|skin(2)|urinary_tract(1)	15		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		CCACATTGCCGGAGAGCAGAT	0.607000													3	31					0	0	1	0	0
TRIO	7204	broad.mit.edu	37	5	14287075	14287075	+	Missense_Mutation	SNP	C	C	G			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr5:14287075C>G	ENST00000344204.4	+	4	467	c.443C>G	c.(442-444)tCc>tGc	p.S148C	TRIO_ENST00000509967.2_Missense_Mutation_p.S99C|TRIO_ENST00000537187.1_Missense_Mutation_p.S148C	NM_007118.2	NP_009049.2	O75962	TRIO_HUMAN	trio Rho guanine nucleotide exchange factor	148	CRAL-TRIO.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			NS(2)|breast(6)|central_nervous_system(4)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(21)|lung(34)|ovary(4)|prostate(2)|skin(11)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	118	Lung NSC(4;0.000742)					CTGCAGGAGTCCTTCCCCTGC	0.522000													20	46					0	0	1	0	0
ARHGAP10	79658	broad.mit.edu	37	4	148787930	148787930	+	Missense_Mutation	SNP	A	A	G	rs145720035		TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr4:148787930A>G	ENST00000336498.3	+	7	904	c.665A>G	c.(664-666)aAt>aGt	p.N222S		NM_024605.3	NP_078881.3	A1A4S6	RHG10_HUMAN	Rho GTPase activating protein 10	222	BAR.				apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			autonomic_ganglia(2)|endometrium(5)|kidney(2)|large_intestine(4)|liver(2)|lung(13)|ovary(1)|pancreas(1)|prostate(1)|skin(2)	33	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)		AAAGACTTCAATCACTACAAA	0.343000											OREG0016355	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	43					0	0	1	0	0
PLEKHG1	57480	broad.mit.edu	37	6	151161960	151161960	+	Silent	SNP	T	T	A			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr6:151161960T>A	ENST00000367328.1	+	17	4398	c.4086T>A	c.(4084-4086)tcT>tcA	p.S1362S	PLEKHG1_ENST00000358517.2_Silent_p.S1362S	NM_001029884.1	NP_001025055.1	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 1	1362					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			breast(3)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(10)|lung(19)|ovary(5)|prostate(4)|stomach(1)|urinary_tract(3)	53			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GGGGGCCATCTCCCAATCAAC	0.393000													24	53					0	0	1	0	0
RGL4	266747	broad.mit.edu	37	22	24034583	24034583	+	Missense_Mutation	SNP	C	C	A			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr22:24034583C>A	ENST00000290691.5	+	2	1411	c.241C>A	c.(241-243)Ccg>Acg	p.P81T	RGL4_ENST00000401461.1_5'UTR|GUSBP11_ENST00000417194.1_RNA	NM_153615.1	NP_705843.1	Q8IZJ4	RGDSR_HUMAN	ral guanine nucleotide dissociation stimulator-like 4	81					small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle	guanyl-nucleotide exchange factor activity			endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|skin(3)	15						CTATCAGCCCCCGCAACGGTC	0.547000													5	88					0.014758	0.0164942	1	1	0
TPI1	7167	broad.mit.edu	37	12	6976729	6976729	+	Missense_Mutation	SNP	C	C	T			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr12:6976729C>T	ENST00000229270.4	+	1	447	c.110C>T	c.(109-111)gCc>gTc	p.A37V	TPI1_ENST00000396705.5_5'UTR	NM_001159287.1	NP_001152759.1	P60174	TPIS_HUMAN	triosephosphate isomerase 1	0					fatty acid biosynthetic process|gluconeogenesis|glycolysis|pentose-phosphate shunt	cytosol	triose-phosphate isomerase activity			endometrium(2)|kidney(2)|large_intestine(1)|lung(11)|prostate(1)|skin(2)	19						GGCTCCAGCGCCATGGCGCCC	0.642000													4	9					0	0	1	0	0
POSTN	10631	broad.mit.edu	37	13	38160280	38160280	+	Silent	SNP	G	G	T			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr13:38160280G>T	ENST00000379747.4	-	7	1008	c.891C>A	c.(889-891)tcC>tcA	p.S297S	POSTN_ENST00000379742.4_Silent_p.S297S|POSTN_ENST00000379749.4_Silent_p.S297S|POSTN_ENST00000541179.1_Silent_p.S297S|POSTN_ENST00000379743.4_Silent_p.S297S|POSTN_ENST00000541481.1_Silent_p.S297S	NM_006475.2	NP_006466.2	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor	297	FAS1 2.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(16)|lung(22)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	59		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		AACTACCTTCGGAAGCCACTT	0.423000													5	84					0.217242	0.229311	1	1	0
EFCAB6	64800	broad.mit.edu	37	22	44083357	44083357	+	Missense_Mutation	SNP	C	C	T			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr22:44083357C>T	ENST00000262726.7	-	11	1389	c.1136G>A	c.(1135-1137)aGa>aAa	p.R379K	EFCAB6_ENST00000396231.2_Missense_Mutation_p.R227K|EFCAB6_ENST00000358439.4_Intron	NM_022785.3	NP_073622.2	Q5THR3	EFCB6_HUMAN	EF-hand calcium binding domain 6	379					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			breast(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(16)|lung(25)|ovary(4)|pancreas(1)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	68		Ovarian(80;0.0247)|all_neural(38;0.025)				ATACCTATTTCTTTTTGTCAG	0.308000													15	24					0	0	1	0	0
LOC101929950	101929950	broad.mit.edu	37	17	36365080	36365080	+	Missense_Mutation	SNP	C	C	G			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr17:36365080C>G	ENST00000312412.4	-	4	514	c.515G>C	c.(514-516)cGc>cCc	p.R172P	RP11-1407O15.2_ENST00000544906.1_Missense_Mutation_p.R17P																kidney(1)|lung(3)	4						AGCAGCATAGCGCACCTCTCC	0.368000													9	21					0	0	1	0	0
ZNF613	79898	broad.mit.edu	37	19	52447915	52447915	+	Missense_Mutation	SNP	A	A	G			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr19:52447915A>G	ENST00000293471.6	+	6	1458	c.779A>G	c.(778-780)tAt>tGt	p.Y260C	ZNF613_ENST00000391794.4_Missense_Mutation_p.Y224C	NM_001031721.3	NP_001026891.2	Q6PF04	ZN613_HUMAN	zinc finger protein 613	260					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|skin(1)|urinary_tract(1)	19		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		GAGAAACCCTATGAATGCACT	0.453000													4	62					0	0	1	0	0
MC3R	4159	broad.mit.edu	37	20	54824371	54824371	+	Missense_Mutation	SNP	G	G	A			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr20:54824371G>A	ENST00000243911.2	+	1	584	c.472G>A	c.(472-474)Gtg>Atg	p.V158M		NM_019888.3	NP_063941.3	P41968	MC3R_HUMAN	melanocortin 3 receptor	195					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding			breast(2)|endometrium(1)|kidney(3)|large_intestine(3)|lung(13)|ovary(3)|skin(1)	26			Colorectal(105;0.202)			CATCATGACCGTGAGGAAGGC	0.587000													4	80					0	0	1	0	0
PRG4	10216	broad.mit.edu	37	1	186276981	186276981	+	Silent	SNP	A	A	G			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr1:186276981A>G	ENST00000445192.2	+	7	2175	c.2130A>G	c.(2128-2130)aaA>aaG	p.K710K	PRG4_ENST00000367484.3_Intron|PRG4_ENST00000367485.4_Silent_p.K617K|PRG4_ENST00000367486.3_Silent_p.K667K|PRG4_ENST00000367483.4_Silent_p.K669K	NM_005807.3	NP_005798.2	Q92954	PRG4_HUMAN	proteoglycan 4	710	59 X 8 AA repeats of K-X-P-X-P-T-T-X.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			NS(2)|breast(1)|central_nervous_system(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(12)|lung(33)|prostate(7)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(1)	102						CTACCCCTAAAGGGACTGCTC	0.582000													5	80					0	0	1	0	0
DENND4A	10260	broad.mit.edu	37	15	65956953	65956953	+	Missense_Mutation	SNP	G	G	A			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr15:65956953G>A	ENST00000443035.3	-	31	5679	c.5464C>T	c.(5464-5466)Cca>Tca	p.P1822S	DENND4A_ENST00000431932.2_Missense_Mutation_p.P1779S	NM_001144823.1	NP_001138295.1	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A	1779					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(17)|lung(11)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	51						TGACTCATTGGTCCATAGACA	0.333000													10	22					0	0	1	0	0
CA10	56934	broad.mit.edu	37	17	50212251	50212251	+	Missense_Mutation	SNP	C	C	T			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr17:50212251C>T	ENST00000340813.6	-	2	496	c.67G>A	c.(67-69)Gtg>Atg	p.V23M	CA10_ENST00000285273.4_Intron|CA10_ENST00000570565.1_Intron|CA10_ENST00000451037.2_Intron|CA10_ENST00000442502.2_Intron			Q9NS85	CAH10_HUMAN	carbonic anhydrase X	0					brain development					cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(21)|ovary(1)|skin(3)|stomach(2)|urinary_tract(1)	41			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			ttctccctcacccccaccata	0.562000													4	47					0	0	1	0	0
PIM2	11040	broad.mit.edu	37	X	48776050	48776050	+	Splice_Site	SNP	C	C	T			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chrX:48776050C>T	ENST00000376509.4	-	1	251		c.e1+1			NM_006875.3	NP_006866.2	Q9P1W9	PIM2_HUMAN	pim-2 oncogene						anti-apoptosis|cell proliferation|male meiosis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|response to virus		ATP binding|protein serine/threonine kinase activity			lung(3)|stomach(1)	4						GATGTACTCACCTGGCGGCGG	0.697000													3	18					0	0	1	0	0
MATN2	4147	broad.mit.edu	37	8	98943421	98943421	+	Missense_Mutation	SNP	G	G	A			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr8:98943421G>A	ENST00000254898.5	+	3	614	c.383G>A	c.(382-384)cGg>cAg	p.R128Q	MATN2_ENST00000521689.1_Missense_Mutation_p.R128Q|MATN2_ENST00000524308.1_Missense_Mutation_p.R128Q|MATN2_ENST00000522025.2_Intron|MATN2_ENST00000520016.1_Missense_Mutation_p.R128Q	NM_002380.3|NM_030583.2	NP_002371.3|NP_085072.2	O00339	MATN2_HUMAN	matrilin 2	128	VWFA 1.					proteinaceous extracellular matrix	calcium ion binding			breast(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(17)|ovary(2)|urinary_tract(1)	31	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			AAGAGGATGCGGCATCTGTCC	0.587000													3	22					0	0	1	0	0
ATP12A	479	broad.mit.edu	37	13	25268673	25268673	+	Missense_Mutation	SNP	G	G	A			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr13:25268673G>A	ENST00000218548.6	+	11	1820	c.1487G>A	c.(1486-1488)cGc>cAc	p.R496H	ATP12A_ENST00000381946.3_Missense_Mutation_p.R490H	NM_001185085.1|NM_001676.5	NP_001172014.1|NP_001667.4	P54707	AT12A_HUMAN	ATPase, H+/K+ transporting, nongastric, alpha polypeptide	490					ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding	p.R490H(1)		breast(6)|central_nervous_system(4)|endometrium(3)|kidney(5)|large_intestine(23)|lung(23)|ovary(2)|pancreas(1)|prostate(2)|skin(5)	74		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	AAAAGAAACCGCAAAGTAGCT	0.393000											OREG0022298	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	72					0	0	1	0	0
RCBTB2	1102	broad.mit.edu	37	13	49076986	49076986	+	Missense_Mutation	SNP	C	C	T			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr13:49076986C>T	ENST00000344532.3	-	11	1414	c.991G>A	c.(991-993)Gtg>Atg	p.V331M	RCBTB2_ENST00000430805.2_Missense_Mutation_p.V336M|RCBTB2_ENST00000544904.1_Missense_Mutation_p.R259H|RCBTB2_ENST00000544492.1_Missense_Mutation_p.V57M	NM_001268.2	NP_001259.1	O95199	RCBT2_HUMAN	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	331							Ran guanyl-nucleotide exchange factor activity	p.V331M(1)		breast(5)|endometrium(3)|kidney(2)|large_intestine(2)|lung(11)|ovary(2)|prostate(3)|skin(3)	31		all_cancers(8;4.86e-71)|all_epithelial(8;2.11e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;2.3e-10)|Lung NSC(96;1.07e-07)|Breast(56;1.53e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.00826)|Myeloproliferative disorder(33;0.0179)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(99;1.8e-09)|LUSC - Lung squamous cell carcinoma(3;0.116)		CACATGTACACGTGCCCACCC	0.582000													4	43					0	0	1	0	0
OR4K2	390431	broad.mit.edu	37	14	20345163	20345163	+	Missense_Mutation	SNP	T	T	C			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr14:20345163T>C	ENST00000298642.2	+	1	773	c.737T>C	c.(736-738)gTt>gCt	p.V246A		NM_001005501.1	NP_001005501.1	Q8NGD2	OR4K2_HUMAN	olfactory receptor, family 4, subfamily K, member 2	246					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			NS(1)|endometrium(5)|kidney(2)|large_intestine(6)|lung(16)|ovary(2)|skin(9)|upper_aerodigestive_tract(2)	43	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CATTTCATTGTTGTCTTCTTG	0.383000													5	112					0	0	1	0	0
GOLGA6C	653641	broad.mit.edu	37	15	75562493	75562493	+	Missense_Mutation	SNP	C	C	A			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr15:75562493C>A	ENST00000300576.5	+	18	2035	c.2035C>A	c.(2035-2037)Ccg>Acg	p.P679T		NM_001164404.1	NP_001157876.1	A6NDK9	GOG6C_HUMAN	golgin A6 family, member C	679										ovary(1)	1						TGACAACCCCCCGGTACAGCA	0.602000													6	19					0.00116845	0.00138753	1	1	0
POLR3B	55703	broad.mit.edu	37	12	106820987	106820987	+	Missense_Mutation	SNP	C	C	T			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr12:106820987C>T	ENST00000228347.4	+	13	1336	c.1114C>T	c.(1114-1116)Ctt>Ttt	p.L372F	POLR3B_ENST00000539066.1_Missense_Mutation_p.L314F|POLR3B_ENST00000549195.1_3'UTR	NM_018082.5	NP_060552.4	Q9NW08	RPC2_HUMAN	polymerase (RNA) III (DNA directed) polypeptide B	372					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding	p.L372F(2)		breast(2)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(14)|lung(22)|ovary(1)|prostate(3)|skin(3)|urinary_tract(2)	57						TTTATCTCTTCTTTTTGAAGA	0.274000													6	10					0	0	1	0	0
CUL4B	8450	broad.mit.edu	37	X	119672576	119672576	+	Silent	SNP	C	C	A			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chrX:119672576C>A	ENST00000371322.5	-	13	1852	c.1791G>T	c.(1789-1791)ctG>ctT	p.L597L	CUL4B_ENST00000336592.6_Silent_p.L602L|CUL4B_ENST00000404115.3_Silent_p.L615L	NM_001079872.1	NP_001073341.1	Q13620	CUL4B_HUMAN	cullin 4B	615					cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(7)|lung(14)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	36						TTCCGACTAACAGGCGCTTGG	0.348000													16	114					1.67942e-08	2.05864e-08	1	1	0
UBA7	7318	broad.mit.edu	37	3	49848257	49848257	+	Silent	SNP	G	G	A			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr3:49848257G>A	ENST00000333486.3	-	11	1397	c.1239C>T	c.(1237-1239)agC>agT	p.S413S		NM_003335.2	NP_003326.2	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	413	2 approximate repeats.				ISG15-protein conjugation|negative regulation of type I interferon production	cytosol	ATP binding|ISG15 activating enzyme activity|ligase activity			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(15)|large_intestine(4)|lung(7)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)	33				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CATCATAGCGGCTGCCTCTCT	0.557000													3	45					0	0	1	0	0
PAN3	255967	broad.mit.edu	37	13	28854620	28854620	+	Missense_Mutation	SNP	A	A	T			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr13:28854620A>T	ENST00000399613.1	+	15	1724	c.1661A>T	c.(1660-1662)tAt>tTt	p.Y554F	PAN3_ENST00000380958.3_Missense_Mutation_p.Y754F|PAN3_ENST00000282391.5_Missense_Mutation_p.Y442F			Q58A45	PAN3_HUMAN	PAN3 poly(A) specific ribonuclease subunit homolog (S. cerevisiae)	754	Interaction with PAN2.|Protein kinase.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			endometrium(1)|kidney(3)|large_intestine(7)|lung(9)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		GCTCGATTTTATACTCAATTG	0.343000													4	84					0	0	1	0	0
ZFHX3	463	broad.mit.edu	37	16	72828227	72828227	+	Missense_Mutation	SNP	A	A	C			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr16:72828227A>C	ENST00000268489.5	-	9	9026	c.8354T>G	c.(8353-8355)cTc>cGc	p.L2785R	ZFHX3_ENST00000397992.5_Missense_Mutation_p.L1871R	NM_006885.3	NP_008816.3	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3	2785					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			NS(3)|breast(7)|cervix(2)|endometrium(18)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(22)|liver(1)|lung(46)|ovary(5)|pancreas(1)|prostate(15)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(11)	153		Ovarian(137;0.13)				CACAGGTGAGAGGGGGACACC	0.488000													12	36					0	0	1	0	0
RHPN2	85415	broad.mit.edu	37	19	33486990	33486990	+	Silent	SNP	G	G	A	rs142685730		TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr19:33486990G>A	ENST00000254260.3	-	11	1397	c.1362C>T	c.(1360-1362)taC>taT	p.Y454Y	RHPN2_ENST00000400226.4_Silent_p.Y303Y	NM_033103.4	NP_149094.3	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	454	BRO1.				signal transduction	perinuclear region of cytoplasm	protein binding			NS(1)|breast(3)|central_nervous_system(5)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|prostate(3)|skin(3)|urinary_tract(1)	44	Esophageal squamous(110;0.137)					GGTGCTGGGCGTACGTGAGCC	0.622000													3	43					0	0	1	0	0
PRAMEF11	440560	broad.mit.edu	37	1	12885289	12885289	+	Silent	SNP	G	G	T	rs148273194	by1000genomes	TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr1:12885289G>T	ENST00000535591.1	-	4	1017	c.822C>A	c.(820-822)ctC>ctA	p.L274L		NM_001146344.1	NP_001139816.1	O60813	PRA11_HUMAN	PRAME family member 11	274								p.L274L(3)		NS(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|lung(7)|pancreas(2)|skin(4)|urinary_tract(1)	27						GGCACTGGGAGAGATGCTTCA	0.458000													4	154					0.0215528	0.0234001	1	1	0
TJP2	9414	broad.mit.edu	37	9	71836075	71836075	+	Frame_Shift_Del	DEL	G	G	-			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr9:71836075delG	ENST00000377245.4	+	5	823	c.615delG	c.(613-615)ctfs	p.L205fs	TJP2_ENST00000348208.4_Frame_Shift_Del_p.L205fs|TJP2_ENST00000453658.2_Frame_Shift_Del_p.L182fs|TJP2_ENST00000539225.1_Frame_Shift_Del_p.L236fs|TJP2_ENST00000535702.1_Frame_Shift_Del_p.L209fs|TJP2_ENST00000265384.7_Frame_Shift_Del_p.L205fs	NM_004817.3	NP_004808.2	Q9UDY2	ZO2_HUMAN	tight junction protein 2	205					cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding			NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(5)|lung(9)|prostate(3)|skin(3)|soft_tissue(1)|upper_aerodigestive_tract(1)	35						AGCGGGGCCTGGACCAAGACC	0.756													2	4	---	---	---	---					
ARHGEF40	55701	broad.mit.edu	37	14	21542956	21542961	+	In_Frame_Del	DEL	GAGGAG	GAGGAG	-			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr14:21542956_21542961delGAGGAG	ENST00000298694.4	+	3	1194_1199	c.1067_1072delGAGGAG	c.(1066-1074)aga>a	p.RGG356del	ARHGEF40_ENST00000298693.3_In_Frame_Del_p.RGG356del			Q8TER5	ARH40_HUMAN	Rho guanine nucleotide exchange factor (GEF) 40	356	Gly-rich.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(4)|ovary(3)|upper_aerodigestive_tract(2)	9						GGGGAGCTTAGAGGAGGAGGAGGAGG	0.631													4	6	---	---	---	---					
DNM1P47	100216544	broad.mit.edu	37	15	102293062	102293064	+	RNA	DEL	CTC	CTC	-	rs4965539		TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr15:102293062_102293064delCTC	ENST00000561463.1	+	0	1108_1110																											AGTTCATCTTCTCAGAGCTGCTG	0.576													3	4	---	---	---	---					
IL9RP3	729486	broad.mit.edu	37	16	81973	81974	+	RNA	INS	-	-	GTCC			TCGA-QT-A5XP-01A-11D-A35D-08	TCGA-QT-A5XP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4cf3ec1f-022a-44cd-a51e-d8c01300cc36	b036adde-05e3-4393-9109-b4c1573fc6c7	g.chr16:81973_81974insGTCC	ENST00000568710.1	-	0	349																											ATCAGCAGGAGGCCCACCTCGT	0.614													4	6	---	---	---	---