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
LOC653113	653113	broad.mit.edu	37	12	8388326	8388326	+	RNA	SNP	G	C	C	rs113732517		TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr12:8388326G>C	uc010sgk.1	-	3		c.283C>G				NR_024254				Homo sapiens family with sequence similarity 86, member A pseudogene (LOC653113), non-coding RNA.												0						CGAGCCTCCCGAGGGCTGCAC	0.577000													3	32	---	---	---	---	0	0	0.115264	0	0
BTBD12	84464	broad.mit.edu	37	16	3642722	3642722	+	Missense_Mutation	SNP	C	G	G	rs150712805	byFrequency	TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr16:3642722C>G	uc002cvp.2	-	11	2932	c.2305G>C	c.(2305-2307)GAG>CAG	p.E769Q		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	769	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						GAGCTCAGCTCAGAGCTAAGG	0.597000								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				3	23	---	---	---	---	0	0	0.115264	0	0
ZNF254	9534	broad.mit.edu	37	19	24288767	24288767	+	Missense_Mutation	SNP	C	T	T			TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr19:24288767C>T	uc002nru.2	+	2	190	c.56C>T	c.(55-57)GCC>GTC	p.A19V	ZNF254_uc010xrk.1_Intron|ZNF254_uc002nrt.1_RNA	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	19	KRAB.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				AGGGATGTGGCCATAGAATTC	0.408000													64	121	---	---	---	---	0	0	0.870114	0	0
HAAO	23498	broad.mit.edu	37	2	43010952	43010952	+	Missense_Mutation	SNP	T	A	A			TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr2:43010952T>A	uc002rst.3	-	3	290	c.215A>T	c.(214-216)CAC>CTC	p.H72L	HAAO_uc010ynw.1_Missense_Mutation_p.H72L	NM_012205	NP_036337	P46952	3HAO_HUMAN	3-hydroxyanthranilate 3,4-dioxygenase	72	Domain A (catalytic) (By similarity).				neuron homeostasis|pyridine nucleotide biosynthetic process|quinolinate biosynthetic process|response to cadmium ion|response to zinc ion|tryptophan catabolic process	cytosol|soluble fraction	3-hydroxyanthranilate 3,4-dioxygenase activity|electron carrier activity|ferrous iron binding			ovary(1)	1						CACATCCCGGTGTTTCCCTTG	0.602000													7	12	---	---	---	---	0	0	0.307466	0	0
FRG1B	284802	broad.mit.edu	37	20	29624093	29624093	+	Splice_Site	SNP	G	T	T	rs75468660		TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr20:29624093G>T	uc010ztl.1	+	1	58	c.26_splice	c.e1+1	p.R9_splice	FRG1B_uc002wvm.1_Intron|FRG1B_uc010ztj.1_Intron|FRG1B_uc010gdr.1_Intron|FRG1B_uc010ztk.1_Intron					Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0						CTGATTCCAGGTGAGCTTATG	0.289000													5	10	---	---	---	---	0.000602214	0.000697301	0.184627	1	0
SPDYE7P	441251	broad.mit.edu	37	7	72339497	72339497	+	RNA	SNP	T	C	C	rs390732	by1000genomes	TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr7:72339497T>C	uc010lal.1	-	1		c.159A>G				NR_003666				Homo sapiens speedy homolog E7 (Xenopus laevis), pseudogene (SPDYE7P), non-coding RNA.												0						TCCTCAGATTTGTCCCACCAC	0.582000													3	35	---	---	---	---	0	0	0.115264	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	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				38	60	---	---	---	---	0	0	0.796494	0	0
GPR124	25960	broad.mit.edu	37	8	37693173	37693173	+	Silent	SNP	G	A	A			TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr8:37693173G>A	uc003xkj.2	+	13	2298	c.1935G>A	c.(1933-1935)CTG>CTA	p.L645L	GPR124_uc010lvy.2_Intron	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	645	Extracellular (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			CCCTGCAACTGCTCGTCTTCC	0.682000													30	81	---	---	---	---	0	0	0.760397	0	0
TUBBP5	643224	broad.mit.edu	37	9	141070139	141070139	+	Missense_Mutation	SNP	C	T	T	rs143443709	by1000genomes	TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr9:141070139C>T	uc004com.2	+	3	298	c.37C>T	c.(37-39)CTC>TTC	p.L13F	TUBBP5_uc010ncq.2_Missense_Mutation_p.L127F					RecName: Full=Putative tubulin beta-4q chain;												0						CGGGCAGGTCCTCAGGCCAGA	0.667000													4	59	---	---	---	---	0	0	0.278610	0	0
SFRS11	9295	broad.mit.edu	37	1	70716352	70716352	+	Frame_Shift_Del	DEL	A	-	-			TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr1:70716352delA	uc001des.2	+	13	1443	c.1319delA	c.(1318-1320)GAAfs	p.E440fs	SFRS11_uc001det.2_Frame_Shift_Del_p.E439fs|SFRS11_uc001dev.2_Frame_Shift_Del_p.E250fs|SFRS11_uc001dew.2_Frame_Shift_Del_p.E380fs	NM_004768	NP_004759	Q05519	SRS11_HUMAN	splicing factor, arginine/serine-rich 11	440					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0						GAGAAAAAAGAAGAGAAGAAA	0.393													7	47	---	---	---	---					
KIAA0284	283638	broad.mit.edu	37	14	105352885	105352890	+	In_Frame_Del	DEL	GCAGGA	-	-	rs60001925		TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr14:105352885_105352890delGCAGGA	uc010axb.2	+	12	2533_2538	c.2309_2314delGCAGGA	c.(2308-2316)CGCAGGAGC>CGC	p.RS771del	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_In_Frame_Del_p.RS701del|KIAA0284_uc001yps.2_In_Frame_Del_p.RS677del|KIAA0284_uc001ypt.2_5'Flank	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	771_772						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		GACAGCAGACGCAGGAGCCCCCAGGA	0.694													5	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	19	22486838	22486838	+	IGR	DEL	T	-	-			TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr19:22486838delT								ZNF676 (107085 upstream) : ZNF98 (87061 downstream)																							TAGAAAGGAAttttttttttt	0.164													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	91899626	91899626	+	IGR	DEL	A	-	-			TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chr2:91899626delA								LOC654342 (51651 upstream) : GGT8P (63742 downstream)																							CCAGAGGCTCAAAAAAAAAAA	0.289													5	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	43138615	43138615	+	IGR	DEL	G	-	-			TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chrX:43138615delG								PPP1R2P9 (501129 upstream) : MAOA (376794 downstream)																							GGGTGCAGTTGTGGTGAATGA	0.557													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	54868437	54868437	+	IGR	DEL	T	-	-			TCGA-ET-A2MZ-01A-12D-A19J-08	TCGA-ET-A2MZ-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	654b03aa-d212-4e95-ac1b-a0208691cb0e	85072b72-45e1-451a-9caf-7fb88b4f3cd7	g.chrX:54868437delT								MAGED2 (25992 upstream) : TRO (78812 downstream)																							TGGTTTTACCTTTTTTTTTTG	0.378													2	4	---	---	---	---					
