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
GOLGA8E	390535	broad.mit.edu	37	15	23444052	23444052	+	Missense_Mutation	SNP	G	A	A			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr15:23444052G>A	uc001yvu.2	+	14	1696	c.707G>A	c.(706-708)CGG>CAG	p.R236Q		NM_001012423	NP_001012423			golgi autoantigen, golgin subfamily a, 8E											skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;5.21e-07)|Epithelial(43;5.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.000614)		GAGGCACCTCGGCCCATGCCG	0.607													4	25	---	---	---	---	0	0	0.217242	0	0
Unknown	0	broad.mit.edu	37	15	76074431	76074431	+	Missense_Mutation	SNP	C	T	T	rs149323153	by1000genomes	TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr15:76074431C>T	uc010umm.1	+	8	610	c.533C>T	c.(532-534)TCG>TTG	p.S178L	uc002bba.1_5'Flank					SubName: Full=cDNA FLJ59077, highly similar to Golgin subfamily A member 6;																		CTCCAGTCCTCGAGCTGCAGA	0.547													5	30	---	---	---	---	0	0	0.248553	0	0
Unknown	0	broad.mit.edu	37	15	76074470	76074470	+	Missense_Mutation	SNP	A	G	G			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr15:76074470A>G	uc010umm.1	+	8	649	c.572A>G	c.(571-573)CAG>CGG	p.Q191R	uc002bba.1_5'Flank					SubName: Full=cDNA FLJ59077, highly similar to Golgin subfamily A member 6;																		CGGTTACAGCAGACCATAAAG	0.577													4	35	---	---	---	---	0	0	0.248553	0	0
MTMR4	9110	broad.mit.edu	37	17	56589844	56589844	+	Silent	SNP	A	T	T			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr17:56589844A>T	uc002iwj.2	-	4	227	c.117T>A	c.(115-117)GGT>GGA	p.G39G	MTMR4_uc010dcx.1_Silent_p.G53G	NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	39						cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CTACTCCCTCACCCTGCAGCA	0.542													5	43	---	---	---	---	0	0	0.184627	0	0
LTBP1	4052	broad.mit.edu	37	2	33335734	33335734	+	Nonsense_Mutation	SNP	C	T	T			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr2:33335734C>T	uc002ros.2	+	4	949	c.949C>T	c.(949-951)CAG>TAG	p.Q317*		NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	317					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CTTTCCAGCCCAGAAGGGGAT	0.483													8	111	---	---	---	---	0	0	0.307466	0	0
POM121L9P	29774	broad.mit.edu	37	22	24656985	24656985	+	RNA	SNP	G	A	A			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr22:24656985G>A	uc002zzs.3	+	5		c.2265G>A				NR_003714				Homo sapiens mRNA; cDNA DKFZp434P211 (from clone DKFZp434P211).												0						TGGCTGTGCTGCAAGCTGACT	0.622													2	1	---	---	---	---	0	0	0.115264	0	0
NT5C3	51251	broad.mit.edu	37	7	33063669	33063669	+	Missense_Mutation	SNP	T	C	C			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr7:33063669T>C	uc003tdk.2	-	3	381	c.304A>G	c.(304-306)AGA>GGA	p.R102G	AVL9_uc011kai.1_Intron|NT5C3_uc003tdi.2_Missense_Mutation_p.R63G|NT5C3_uc003tdj.2_Missense_Mutation_p.R63G	NM_001002010	NP_001002010	Q9H0P0	5NT3_HUMAN	5'-nucleotidase, cytosolic III isoform 1	102					nucleotide metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol|endoplasmic reticulum	2'-phosphotransferase activity|5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1			GBM - Glioblastoma multiforme(11;0.0894)			GTTGGGCATCTTTTCCCTTTA	0.323													2	14	---	---	---	---	0	0	0.115264	0	0
GTF2IRD2P1	401375	broad.mit.edu	37	7	72658179	72658179	+	Missense_Mutation	SNP	T	C	C	rs147293416	by1000genomes	TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr7:72658179T>C	uc003txs.1	-	13	1733	c.805A>G	c.(805-807)AAA>GAA	p.K269E	FKBP6_uc003twz.2_Intron	NR_002164				RecName: Full=General transcription factor II-I repeat domain-containing protein 2B; AltName: Full=GTF2I repeat domain-containing protein 2B; AltName: Full=Transcription factor GTF2IRD2-beta;												0						cagagtgatttcggatgaatt	0													3	45	---	---	---	---	0	0	0.184627	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr7:140453136A>T	uc003vwc.3	-	15	1860	c.1799T>A	c.(1798-1800)GTG>GAG	p.V600E		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	600	Protein kinase.		V -> D (in a melanoma cell line; requires 2 nucleotide substitutions).|V -> E (in sarcoma, colorectal adenocarcinoma, metastatic melanoma, ovarian serous carcinoma, pilocytic astrocytoma; somatic mutation; most common mutation; constitutive and elevated kinase activity; efficiently induces cell transformation; suppression of mutation in melanoma causes growth arrest and promotes apoptosis).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.V600E(16892)|p.V600?(325)|p.V600K(176)|p.V600R(36)|p.V600M(25)|p.V600A(23)|p.V600D(21)|p.V600G(11)|p.V600_K601>E(8)|p.T599_V600insTT(3)|p.T599_R603>I(2)|p.T599_V600>IAL(2)|p.V600L(2)|p.T599_V600insT(2)|p.V600_W604del(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.T599_V600insV(1)|p.T599_V600insDFGLAT(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCGAGATTTCACTGTAGCTAG	0.368	V600E(UACC257_SKIN)|V600D(K029AX_SKIN)|V600E(HS695T_SKIN)|V600E(COLO679_SKIN)|V600E(BT474_BREAST)|V600E(IGR39_SKIN)|V600E(A101D_SKIN)|V600E(COLO783_SKIN)|V600E(IGR37_SKIN)|V600E(A375_SKIN)|V600E(WM793_SKIN)|V600E(COLO818_SKIN)|V600E(HS294T_SKIN)|V600E(SKMEL28_SKIN)|V600E(DU4475_BREAST)|V600E(SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|V600E(IGR1_SKIN)|V600E(SKHEP1_LIVER)|V600E(WM983B_SKIN)|V600E(GCT_SOFT_TISSUE)|V600E(RVH421_SKIN)|V600D(WM2664_SKIN)|V600E(CL34_LARGE_INTESTINE)|V600E(SKMEL24_SKIN)|V600D(WM115_SKIN)|V600E(MALME3M_SKIN)|V600E(A673_BONE)|V600E(C32_SKIN)|V600E(DBTRG05MG_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO800_SKIN)|V600E(COLO741_SKIN)|V600E(HS939T_SKIN)|V600E(COLO205_LARGE_INTESTINE)|V600E(K029AX_SKIN)|V600E(AM38_CENTRAL_NERVOUS_SYSTEM)|V600E(SH4_SKIN)|V600E(WM88_SKIN)|V600E(KG1C_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO849_SKIN)|V600E(MELHO_SKIN)|V600E(BHT101_THYROID)|V600E(G361_SKIN)|V600E(UACC62_SKIN)|V600E(BCPAP_THYROID)|V600E(8505C_THYROID)|V600E(SW1417_LARGE_INTESTINE)|V600E(COLO829_SKIN)|V600E(RKO_LARGE_INTESTINE)|V600E(A2058_SKIN)|V600E(RPMI7951_SKIN)|V600E(OUMS23_LARGE_INTESTINE)|V600E(SKMEL5_SKIN)|V600E(ES2_OVARY)|V600E(LOXIMVI_SKIN)	61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				20	38	---	---	---	---	0	0	0.639603	0	0
COL5A3	50509	broad.mit.edu	37	19	10081307	10081307	+	Frame_Shift_Del	DEL	G	-	-			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr19:10081307delG	uc002mmq.1	-	54	4013	c.3927delC	c.(3925-3927)CCCfs	p.P1309fs		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1309	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			CCCTCTTgccggggggcccgg	0.488													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	20	26113543	26113543	+	IGR	DEL	A	-	-			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr20:26113543delA								C20orf191 (18866 upstream) : MIR663 (75279 downstream)																							TCTTTGCCTTAACAACATTAT	0.363													2	4	---	---	---	---					
NKX6-1	4825	broad.mit.edu	37	4	85419086	85419086	+	Frame_Shift_Del	DEL	T	-	-			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr4:85419086delT	uc003hpa.1	-	1	302	c.296delA	c.(295-297)AACfs	p.N99fs		NM_006168	NP_006159	P78426	NKX61_HUMAN	NK6 transcription factor related, locus 1	99					detection of glucose|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|type B pancreatic cell maturation	nucleus					0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.0013)		CAGGATATCGTTGATGCCGTG	0.567													2	4	---	---	---	---					
OCM	654231	broad.mit.edu	37	7	5920406	5920406	+	5'Flank	DEL	T	-	-	rs10235465		TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr7:5920406delT	uc003spe.3	+							NM_001097622	NP_001091091	P0CE72	ONCO_HUMAN	oncomodulin								calcium ion binding				0		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0978)|OV - Ovarian serous cystadenocarcinoma(56;2.11e-14)		aaaaaaaaaaTAATCTAGACA	0.229													4	8	---	---	---	---					
Unknown	0	broad.mit.edu	37	8	89498121	89498122	+	IGR	INS	-	A	A			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr8:89498121_89498122insA								MMP16 (158404 upstream) : None (None downstream)																							gaacagctatgaaaaaaaaaac	0.158													2	4	---	---	---	---					
TG	7038	broad.mit.edu	37	8	133981764	133981765	+	Frame_Shift_Ins	INS	-	AT	AT			TCGA-ET-A3BO-01A-11D-A19J-08	TCGA-ET-A3BO-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3e8ce68-6e9b-44c5-8cd3-4c39429460fa	cd5ab7a6-9a19-42a0-bdbd-5b2cb36218ff	g.chr8:133981764_133981765insAT	uc003ytw.2	+	32	5966_5967	c.5925_5926insAT	c.(5923-5928)GGGATAfs	p.G1975fs	TG_uc010mdw.2_Frame_Shift_Ins_p.G734fs|TG_uc011ljb.1_Frame_Shift_Ins_p.G344fs|TG_uc011ljc.1_Frame_Shift_Ins_p.G129fs	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1975_1976	Type IIIA.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AACTGATGGGGATATCCATTAG	0.347													43	80	---	---	---	---					
