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
CROCCL1	84809	broad.mit.edu	37	1	16973519	16973519	+	5'Flank	SNP	G	A	A	rs2501762		TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr1:16973519G>A	uc001azg.1	-						CROCCL1_uc001azi.1_5'Flank|MST1P2_uc009vow.2_RNA|MST1P2_uc010ocg.1_RNA|MST1P2_uc010och.1_RNA|MST1P2_uc010oci.1_RNA|MST1P2_uc001azk.2_RNA|MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_5'Flank|MST1P2_uc001azm.3_5'Flank					Homo sapiens mRNA for FLJ00313 protein.												0						AACTTCTGCCGTAACCCTGAT	0.632000													3	29	---	---	---	---	0	0	0.014758	0	0
HEATR1	55127	broad.mit.edu	37	1	236719122	236719122	+	Nonsense_Mutation	SNP	G	A	A			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr1:236719122G>A	uc001hyd.1	-	39	5757	c.5632C>T	c.(5632-5634)CGA>TGA	p.R1878*	HEATR1_uc009xgh.1_Nonsense_Mutation_p.R1040*	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1878					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			TGCTGGGCTCGGAAGTCCAGG	0.493000													40	86	---	---	---	---	0	0	0.098360	0	0
CD163	9332	broad.mit.edu	37	12	7640177	7640177	+	Missense_Mutation	SNP	A	G	G			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr12:7640177A>G	uc001qsz.3	-	8	1956	c.1828T>C	c.(1828-1830)TCT>CCT	p.S610P	CD163_uc001qta.3_Missense_Mutation_p.S610P|CD163_uc009zfw.2_Missense_Mutation_p.S643P	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	610	SRCR 6.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TCCCAGTGAGAGTTACAGAGG	0.517000													9	91	---	---	---	---	0	0	0.047766	0	0
RPL13AP20	387841	broad.mit.edu	37	12	13028826	13028826	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr12:13028826G>A	uc010sho.1	+	1	416	c.394G>A	c.(394-396)GCA>ACA	p.A132T		NR_003932				SubName: Full=Ribosomal protein L13a variant; Flags: Fragment;												0						TCTGAAGCCTGCAAGAAAGTT	0.567000													3	17	---	---	---	---	0	0	0.014758	0	0
GATC	283459	broad.mit.edu	37	12	120897756	120897756	+	Silent	SNP	C	T	T			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr12:120897756C>T	uc010szi.1	+	4	405	c.405C>T	c.(403-405)CAC>CAT	p.H135H		NM_176818	NP_789788	O43716	GATCL_HUMAN	glutamyl-tRNA(Gln) amidotransferase, subunit C	135					regulation of translational fidelity						0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CATTCCCACACAGCTGAGTAG	0.323000													9	33	---	---	---	---	0	0	0.058154	0	0
ADAM6	8755	broad.mit.edu	37	14	106845426	106845426	+	RNA	SNP	A	C	C			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr14:106845426A>C	uc010tyt.1	-	307		c.12260T>G								Parts of antibodies, mostly variable regions.												0						TCGGCCCTTCACAGAGTCTGC	0.527000													40	117	---	---	---	---	0	0	0.098360	0	0
ANP32A	8125	broad.mit.edu	37	15	69072764	69072764	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr15:69072764C>T	uc002arl.2	-	6	844	c.673G>A	c.(673-675)GAA>AAA	p.E225K		NM_006305	NP_006296	P39687	AN32A_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32	225	Interaction with E4F1 (By similarity).|Asp/Glu-rich (highly acidic).				intracellular signal transduction|mRNA metabolic process|nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleoplasm|perinuclear region of cytoplasm	protein binding				0						AGCTCTTCTTCATCTTCCTCG	0.498000													6	41	---	---	---	---	0	0	0.029380	0	0
Unknown	0	broad.mit.edu	37	17	45128685	45128685	+	5'Flank	SNP	T	C	C	rs145089594	by1000genomes	TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr17:45128685T>C	uc010wkl.1	-						uc010wkm.1_RNA					Homo sapiens cDNA FLJ38031 fis, clone CTONG2013348.																		TTCCAGGATATGGCTATACTG	0.289000													5	102	---	---	---	---	0	0	0.014758	0	0
APOB	338	broad.mit.edu	37	2	21236165	21236165	+	Missense_Mutation	SNP	A	T	T			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr2:21236165A>T	uc002red.2	-	25	4211	c.4083T>A	c.(4081-4083)AAT>AAA	p.N1361K		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1361					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGCTGTAGACATTCGTGGAGA	0.512000													46	102	---	---	---	---	0	0	0.048971	0	0
RALGAPA2	57186	broad.mit.edu	37	20	20582429	20582429	+	Silent	SNP	C	T	T			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr20:20582429C>T	uc002wrz.2	-	16	2243	c.2100G>A	c.(2098-2100)CGG>CGA	p.R700R	RALGAPA2_uc010gcx.2_Silent_p.R404R|RALGAPA2_uc010zsg.1_Silent_p.R101R	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	700					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CTGGGTGGCTCCGCCAGCTGA	0.488000													4	26	---	---	---	---	0	0	0.014758	0	0
PARP8	79668	broad.mit.edu	37	5	50091188	50091188	+	Silent	SNP	C	G	G			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr5:50091188C>G	uc003jon.3	+	13	1547	c.1365C>G	c.(1363-1365)CTC>CTG	p.L455L	PARP8_uc011cpz.1_Silent_p.L347L|PARP8_uc003joo.2_Silent_p.L455L|PARP8_uc003jop.2_Silent_p.L455L	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	455						intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				GCAGGAGGCTCTCTCTTACCT	0.433000													4	60	---	---	---	---	0	0	0.009096	0	0
RIOK1	83732	broad.mit.edu	37	6	7404673	7404673	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr6:7404673G>A	uc003mxn.2	+	10	1051	c.877G>A	c.(877-879)GTC>ATC	p.V293I	RIOK1_uc003mxo.2_Missense_Mutation_p.V52I	NM_031480	NP_113668	Q9BRS2	RIOK1_HUMAN	RIO kinase 1 isoform 1	293	Protein kinase.						ATP binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|skin(1)	4	Ovarian(93;0.0418)					CTTGAAAAATGTCCAGTTATC	0.418000													11	104	---	---	---	---	0	0	0.069234	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	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	0.368000	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				22	47	---	---	---	---	0	0	0.055883	0	0
LOC442421	442421	broad.mit.edu	37	9	66500841	66500841	+	RNA	SNP	C	T	T			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr9:66500841C>T	uc004aed.1	+	3		c.934C>T								Homo sapiens similar to prostaglandin E receptor 4, subtype EP4; PGE receptor, EP4 subtype; prostaglandin E2 receptor, mRNA (cDNA clone IMAGE:5288780).												0						CCACCTGGTGCCCAGGGCTCC	0.632000													5	20	---	---	---	---	0	0	0.029380	0	0
Unknown	0	broad.mit.edu	37	19	21148062	21148062	+	IGR	DEL	A	-	-			TCGA-DJ-A2PV-01A-11D-A19J-08	TCGA-DJ-A2PV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	47e34bfc-1871-4943-833f-60894efc3112	40a0e16b-e1e8-4ccc-b56f-73603a392548	g.chr19:21148062delA								ZNF85 (14561 upstream) : ZNF430 (55435 downstream)																							TTCAAAGGTCAAAAAAAAAAA	0.224													2	4	---	---	---	---					
