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
EYA1	2138	broad.mit.edu	37	8	72211442	72211442	+	Silent	SNP	G	G	A			TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr8:72211442G>A	ENST00000340726.3	-	9	1305	c.666C>T	c.(664-666)ggC>ggT	p.G222G	EYA1_ENST00000388742.4_Silent_p.G222G|EYA1_ENST00000419131.1_Silent_p.G217G|EYA1_ENST00000388740.3_Silent_p.G189G|EYA1_ENST00000388741.2_Silent_p.G188G|EYA1_ENST00000303824.7_Silent_p.G216G|EYA1_ENST00000388743.2_Silent_p.G221G	NM_000503.4	NP_000494.2	Q99502	EYA1_HUMAN	eyes absent homolog 1 (Drosophila)	222					double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			NS(2)|breast(3)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(8)|lung(15)|ovary(4)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	44	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			ACTGACCCTGGCCAAAACTGG	0.443000													3	59					0	0	1	0	0
RP11-417J8.6	0	broad.mit.edu	37	1	142713407	142713407	+	RNA	SNP	C	C	T	rs142431664	by1000genomes	TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr1:142713407C>T	ENST00000369381.2	-	0	1198																											CAGTAAGAAACTCATTCTTAT	0.318000													4	27					0	0	1	0	0
UBBP4	0	broad.mit.edu	37	17	21731144	21731144	+	Missense_Mutation	SNP	T	T	G	rs149119138	by1000genomes	TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr17:21731144T>G	ENST00000584755.1	+	2	843	c.446T>G	c.(445-447)cTg>cGg	p.L149R	UBBP4_ENST00000583708.1_3'UTR|UBBP4_ENST00000584398.1_3'UTR|UBBP4_ENST00000578713.1_Missense_Mutation_p.L149R														p.L149R(18)		endometrium(9)|kidney(4)|lung(4)|prostate(3)|urinary_tract(4)	24						GTCCTGCGTCTGAGAGGTGGT	0.542000													6	67					0	0	1	0	0
RP11-798G7.5	0	broad.mit.edu	37	17	43587657	43587657	+	RNA	SNP	C	C	T	rs148404065	by1000genomes	TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr17:43587657C>T	ENST00000253803.2	+	0	267				LRRC37A4P_ENST00000579913.1_RNA																							GGTGACAACACATCTGTTTTA	0.323000													4	45					0	0	1	0	0
ATP2A3	489	broad.mit.edu	37	17	3844559	3844559	+	Silent	SNP	C	C	A			TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr17:3844559C>A	ENST00000309890.7	-	14	1956	c.1806G>T	c.(1804-1806)ccG>ccT	p.P602P	ATP2A3_ENST00000397039.1_5'UTR|ATP2A3_ENST00000359983.3_Silent_p.P602P|ATP2A3_ENST00000397035.3_Silent_p.P602P|ATP2A3_ENST00000397041.3_Silent_p.P602P|ATP2A3_ENST00000352011.3_Silent_p.P602P|ATP2A3_ENST00000397043.3_Silent_p.P602P	NM_174953.2|NM_174954.2|NM_174955.2|NM_174956.2	NP_777613.1|NP_777614.1|NP_777615.1|NP_777616.1	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous	602					ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(1)|skin(3)|stomach(1)|urinary_tract(1)	36				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		CAGGTCGCGGCGGGTCCAGCA	0.647000													3	46					0.150653	0.150653	1	1	0
RP11-423O2.5	0	broad.mit.edu	37	1	142803543	142803543	+	RNA	SNP	C	C	T			TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr1:142803543C>T	ENST00000423385.1	-	0	1422																											TGTTGGAATTCCTGATGAATC	0.269000													5	141					0	0	1	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	A	T	rs121913377		TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr7:140453136A>T	ENST00000288602.6	-	15	1859	c.1799T>A	c.(1798-1800)gTg>gAg	p.V600E		NM_004333.4	NP_004324.2	P15056	BRAF_HUMAN	v-raf murine sarcoma viral oncogene homolog B	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(15453)|p.V600K(252)|p.V600R(44)|p.V600D(16)|p.V600A(12)|p.V600_K601>E(12)|p.V600G(11)|p.T599_R603>I(2)|p.V600Q(2)|p.V600_S605>EK(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.T599_V600insDFGLAT(1)	SLC45A3/BRAF(2)|AGTRAP/BRAF(2)|FAM131B_ENST00000443739/BRAF(7)|AKAP9_ENST00000356239/BRAF(10)|KIAA1549/BRAF(703)|FCHSD1/BRAF(2)	NS(588)|adrenal_gland(3)|autonomic_ganglia(3)|biliary_tract(29)|bone(7)|breast(21)|central_nervous_system(99)|cervix(6)|endometrium(33)|eye(72)|gastrointestinal_tract_(site_indeterminate)(2)|genital_tract(4)|haematopoietic_and_lymphoid_tissue(436)|kidney(3)|large_intestine(6953)|liver(17)|lung(192)|oesophagus(4)|ovary(275)|pancreas(15)|pituitary(1)|prostate(25)|salivary_gland(1)|skin(6285)|small_intestine(12)|soft_tissue(40)|stomach(11)|testis(7)|thyroid(12220)|upper_aerodigestive_tract(13)|urinary_tract(3)	27380	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCGAGATTTCACTGTAGCTAG	0.368000	V600D(K029AX_SKIN)|V600D(WM115_SKIN)|V600D(WM2664_SKIN)|V600E(8505C_THYROID)|V600E(A101D_SKIN)|V600E(A2058_SKIN)|V600E(A375_SKIN)|V600E(A673_BONE)|V600E(AM38_CENTRAL_NERVOUS_SYSTEM)|V600E(BCPAP_THYROID)|V600E(BHT101_THYROID)|V600E(BT474_BREAST)|V600E(C32_SKIN)|V600E(CL34_LARGE_INTESTINE)|V600E(COLO205_LARGE_INTESTINE)|V600E(COLO679_SKIN)|V600E(COLO741_SKIN)|V600E(COLO783_SKIN)|V600E(COLO800_SKIN)|V600E(COLO818_SKIN)|V600E(COLO829_SKIN)|V600E(COLO849_SKIN)|V600E(DBTRG05MG_CENTRAL_NERVOUS_SYSTEM)|V600E(DU4475_BREAST)|V600E(ES2_OVARY)|V600E(G361_SKIN)|V600E(GCT_SOFT_TISSUE)|V600E(HS294T_SKIN)|V600E(HS695T_SKIN)|V600E(HS939T_SKIN)|V600E(IGR1_SKIN)|V600E(IGR37_SKIN)|V600E(IGR39_SKIN)|V600E(K029AX_SKIN)|V600E(KG1C_CENTRAL_NERVOUS_SYSTEM)|V600E(LOXIMVI_SKIN)|V600E(MALME3M_SKIN)|V600E(MELHO_SKIN)|V600E(OUMS23_LARGE_INTESTINE)|V600E(RKO_LARGE_INTESTINE)|V600E(RPMI7951_SKIN)|V600E(RVH421_SKIN)|V600E(SH4_SKIN)|V600E(SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|V600E(SKHEP1_LIVER)|V600E(SKMEL24_SKIN)|V600E(SKMEL28_SKIN)|V600E(SKMEL5_SKIN)|V600E(SW1417_LARGE_INTESTINE)|V600E(UACC257_SKIN)|V600E(UACC62_SKIN)|V600E(WM793_SKIN)|V600E(WM88_SKIN)|V600E(WM983B_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				14	46					0	0	1	0	0
RELN	5649	broad.mit.edu	37	7	103141235	103141235	+	Missense_Mutation	SNP	G	G	A			TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr7:103141235G>A	ENST00000428762.1	-	53	8783	c.8624C>T	c.(8623-8625)cCg>cTg	p.P2875L	RELN_ENST00000343529.5_Missense_Mutation_p.P2875L|RELN_ENST00000424685.2_Missense_Mutation_p.P2875L|CTB-107G13.1_ENST00000422488.1_RNA	NM_005045.3	NP_005036.2	P78509	RELN_HUMAN	reelin	2875	EGF-like 7.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity	p.P2875L(1)		NS(3)|breast(8)|central_nervous_system(3)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(43)|lung(101)|ovary(9)|pancreas(2)|prostate(4)|skin(14)|stomach(2)|upper_aerodigestive_tract(12)|urinary_tract(2)	227				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TGAGTATCCCGGATCACAGAT	0.517000													16	63					0	0	1	0	0
CNGA2	1260	broad.mit.edu	37	X	150912423	150912423	+	Missense_Mutation	SNP	G	G	A			TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chrX:150912423G>A	ENST00000329903.4	+	6	1481	c.1448G>A	c.(1447-1449)cGc>cAc	p.R483H		NM_005140.1	NP_005131.1	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	483					response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(4)|endometrium(4)|large_intestine(5)|lung(34)|prostate(2)	49	Acute lymphoblastic leukemia(192;6.56e-05)					tacatttgccgcaaaggggac	0.527000													4	80					0	0	1	0	0
LRFN2	57497	broad.mit.edu	37	6	40399771	40399771	+	Missense_Mutation	SNP	G	G	A			TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr6:40399771G>A	ENST00000338305.6	-	2	1624	c.1082C>T	c.(1081-1083)gCt>gTt	p.A361V		NM_020737.1	NP_065788.1	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III domain containing 2	361	Ig-like.					cell junction|integral to membrane|postsynaptic membrane				breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(13)|lung(25)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	58	Ovarian(28;0.0418)|Colorectal(47;0.196)					AGCATTGGCAGCAATGCAGGT	0.607000													3	37					0	0	1	0	0
RP11-798G7.5	0	broad.mit.edu	37	17	43587576	43587576	+	RNA	SNP	A	A	G	rs145439557	by1000genomes	TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr17:43587576A>G	ENST00000253803.2	+	0	267				LRRC37A4P_ENST00000579913.1_RNA																							tctgaaaagaaaagaaaaaaa	0.428000													3	24					0	0	1	0	0
CELF3	11189	broad.mit.edu	37	1	151678723	151678725	+	In_Frame_Del	DEL	TGC	TGC	-			TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr1:151678723_151678725delTGC	ENST00000290583.4	-	10	1894_1896	c.1101_1103delGCA	c.(1099-1104)caa>ca	p.QQ371del	CELF3_ENST00000392706.3_In_Frame_Del_p.QQ166del|RP11-98D18.1_ENST00000457548.1_RNA|CELF3_ENST00000470688.1_5'UTR|CELF3_ENST00000290585.4_In_Frame_Del_p.QQ321del	NM_001172648.1|NM_007185.4	NP_001166119.1|NP_009116.3	Q5SZQ8	CELF3_HUMAN	CUGBP, Elav-like family member 3	371	Gln-rich.				nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	mRNA binding|nucleotide binding	p.Q367Q(1)		central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(6)|ovary(1)|prostate(1)	21						ctgctgctgttgctgctgctgct	0.660													2	4	---	---	---	---					
ZNF608	57507	broad.mit.edu	37	5	124079813	124079815	+	In_Frame_Del	DEL	CTC	CTC	-			TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr5:124079813_124079815delCTC	ENST00000306315.5	-	1	1303_1305	c.868_870delGAG	c.(868-870)del	p.E290del	ZNF608_ENST00000504926.1_Intron	NM_020747.2	NP_065798.2	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	290						intracellular	zinc ion binding			breast(4)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(8)|lung(12)|ovary(3)|skin(6)|urinary_tract(1)	46		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		GCCTGTGGCTCTCCTCCTCCTCC	0.522													7	249	---	---	---	---					
PMS2P3	0	broad.mit.edu	37	7	75145720	75145721	+	RNA	DEL	AT	AT	-			TCGA-DB-A75P-01A-11D-A32B-08	TCGA-DB-A75P-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3e439c8-fbfd-43f4-9082-9955c2941eae	17162650-c8fc-48ac-9387-5a715f85e0c5	g.chr7:75145720_75145721delAT	ENST00000418756.1	-	0	618					NR_028059.1															lung(1)	1						TCCTTTGGGGatatatatatat	0.302													2	4	---	---	---	---