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
Unknown	0	broad.mit.edu	37	12	92018	92018	+	Missense_Mutation	SNP	T	C	C			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr12:92018T>C	uc010sdi.1	-	2	320	c.292A>G	c.(292-294)AGT>GGT	p.S98G	uc010sdj.1_RNA					SubName: Full=DEAD/H box polypeptide 11 like 11;																		GACTCCACACTCTCCTGGGTT	0.592													3	10	---	---	---	---	0	0	0.115264	0	0
KRAS	3845	broad.mit.edu	37	12	25398284	25398284	+	Missense_Mutation	SNP	C	A	A	rs121913529		TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr12:25398284C>A	uc001rgp.1	-	2	216	c.35G>T	c.(34-36)GGT>GTT	p.G12V	KRAS_uc001rgq.1_Missense_Mutation_p.G12V|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			GCCTACGCCACCAGCTCCAAC	0.348	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			7	10	---	---	---	---	2.0095e-06	3.27865e-06	0.029380	1	0
ADAM6	8755	broad.mit.edu	37	14	106405640	106405640	+	RNA	SNP	C	T	T			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr14:106405640C>T	uc010tyt.1	-	2358		c.42424G>A								Parts of antibodies, mostly variable regions.												0						GCCGTGTCCTCGGGAGTCACA	0.507													57	140	---	---	---	---	0	0	0.139131	0	0
TET3	200424	broad.mit.edu	37	2	74300714	74300714	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr2:74300714C>T	uc002skb.3	+	2	2128	c.2128C>T	c.(2128-2130)CAC>TAC	p.H710Y	TET3_uc010fez.1_Missense_Mutation_p.H710Y	NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	710							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						ATATTATACTCACTTGGGATC	0.408													3	24	---	---	---	---	0	0	0.115264	0	0
COL6A2	1292	broad.mit.edu	37	21	47545200	47545200	+	Silent	SNP	C	T	T			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr21:47545200C>T	uc002zia.1	+	24	1873	c.1791C>T	c.(1789-1791)TAC>TAT	p.Y597Y	COL6A2_uc002zhy.1_Silent_p.Y597Y|COL6A2_uc002zhz.1_Silent_p.Y597Y|COL6A2_uc002zib.1_Silent_p.Y3Y|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	597	Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		TCATGACCTACGTGAGGGAGA	0.687													5	144	---	---	---	---	0	0	0.021553	0	0
TRNT1	51095	broad.mit.edu	37	3	3189629	3189629	+	Silent	SNP	C	T	T			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr3:3189629C>T	uc003bpp.3	+	8	1198	c.1096C>T	c.(1096-1098)CTG>TTG	p.L366L	TRNT1_uc010hbv.2_Silent_p.L346L|TRNT1_uc003bpm.2_RNA	NM_182916	NP_886552	Q96Q11	TRNT1_HUMAN	tRNA nucleotidyl transferase, CCA-adding, 1	366					protein targeting to mitochondrion|tRNA 3'-end processing	mitochondrion	ATP binding|tRNA adenylyltransferase activity|tRNA binding				0				Epithelial(13;0.00226)|OV - Ovarian serous cystadenocarcinoma(96;0.00592)|all cancers(10;0.011)		ATGTGAACTACTGAAGTACCA	0.418													21	60	---	---	---	---	0	0	0.069288	0	0
ROBO2	6092	broad.mit.edu	37	3	77626739	77626739	+	Nonsense_Mutation	SNP	C	T	T			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr3:77626739C>T	uc003dpy.3	+	15	2945	c.2302C>T	c.(2302-2304)CAG>TAG	p.Q768*	ROBO2_uc003dpz.2_Nonsense_Mutation_p.Q772*|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Nonsense_Mutation_p.Q772*	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	768	Fibronectin type-III 3.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		TCCAGATCACCAGAATGGAAT	0.483													3	51	---	---	---	---	0	0	0.115264	0	0
TNXB	7148	broad.mit.edu	37	6	32037914	32037914	+	Silent	SNP	G	A	A			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr6:32037914G>A	uc003nzl.2	-	14	5470	c.5268C>T	c.(5266-5268)GAC>GAT	p.D1756D		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1838					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CCGTGGTGCCGTCGGCAGTGA	0.617													4	14	---	---	---	---	0	0	0.021553	0	0
NPC1L1	29881	broad.mit.edu	37	7	44578614	44578614	+	Missense_Mutation	SNP	G	T	T			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr7:44578614G>T	uc003tlb.2	-	2	1438	c.1382C>A	c.(1381-1383)GCA>GAA	p.A461E	NPC1L1_uc003tlc.2_Missense_Mutation_p.A461E|NPC1L1_uc011kbw.1_Missense_Mutation_p.A461E|NPC1L1_uc003tld.2_Missense_Mutation_p.A461E	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	461	Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	GTTGCGCTGTGCTTCGGGCGA	0.592													7	42	---	---	---	---	0.00198382	0.00307492	0.029380	1	0
MGAM	8972	broad.mit.edu	37	7	141758106	141758106	+	Missense_Mutation	SNP	T	C	C			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr7:141758106T>C	uc003vwy.2	+	31	3851	c.3797T>C	c.(3796-3798)ATG>ACG	p.M1266T		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1266	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	TATGATGAGATGGTGGCTGCC	0.498													91	217	---	---	---	---	0	0	0.139131	0	0
ELF4	2000	broad.mit.edu	37	X	129200994	129200994	+	Missense_Mutation	SNP	G	T	T			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chrX:129200994G>T	uc004evd.3	-	9	2079	c.1694C>A	c.(1693-1695)ACC>AAC	p.T565N	ELF4_uc004eve.3_Missense_Mutation_p.T565N	NM_001421	NP_001412	Q99607	ELF4_HUMAN	E74-like factor 4	565					natural killer cell proliferation|NK T cell proliferation|positive regulation of transcription from RNA polymerase II promoter	PML body	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CTCCCTCAGGGTCTCTTCAGG	0.612			T	ERG	AML								41	111	---	---	---	---	4.67007e-22	8.516e-22	0.104719	1	0
C1orf135	79000	broad.mit.edu	37	1	26186960	26186960	+	5'Flank	DEL	T	-	-			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr1:26186960delT	uc001bkw.1	-							NM_024037	NP_076942	Q9H7T9	CA135_HUMAN	aurora A-binding protein												0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00521)|all_lung(284;0.00764)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.117)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0429)|OV - Ovarian serous cystadenocarcinoma(117;3.28e-25)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;1.75e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000787)|BRCA - Breast invasive adenocarcinoma(304;0.00102)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.015)|READ - Rectum adenocarcinoma(331;0.0649)		AATTTTGTAATTTTTTTTTTT	0.274													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	14608988	14608988	+	IGR	DEL	T	-	-			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr17:14608988delT								HS3ST3B1 (359496 upstream) : PMP22 (524109 downstream)																							TGCTTTGGGGTTTTTTTTTTT	0.353													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	91685550	91685551	+	IGR	INS	-	A	A	rs149087468		TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr2:91685550_91685551insA								None (None upstream) : LOC654342 (119641 downstream)																							CAGTTTAGACCAAAAAAAAACC	0.356													2	4	---	---	---	---					
LOC644936	644936	broad.mit.edu	37	5	79596393	79596397	+	5'Flank	DEL	CACGG	-	-			TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr5:79596393_79596397delCACGG	uc010jai.2	-							NR_004845				Homo sapiens cytoplasmic beta-actin pseudogene, mRNA (cDNA clone IMAGE:30378151).												0						tccctctccccacggtctccctctc	0.215													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	57659470	57659471	+	IGR	DEL	TA	-	-	rs79867563	by1000genomes	TCGA-EM-A2CQ-01A-11D-A17V-08	TCGA-EM-A2CQ-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	9a10ad75-164b-40d4-81c1-e77e26e959b1	c61db865-9f07-42b6-854f-73e37b642f25	g.chr7:57659470_57659471delTA								ZNF716 (126205 upstream) : None (None downstream)																							GCGTTGATCTTACAGTCTGGTG	0.371													6	9	---	---	---	---					
