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
GPATCH8	23131	broad.mit.edu	37	17	42475015	42475015	+	Missense_Mutation	SNP	G	G	C			TCGA-EL-A3CZ-01A-11D-A19J-08	TCGA-EL-A3CZ-10A-01D-A19M-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	25c1a1a4-82e1-485a-afce-cafaed57945f	15fb2f33-0687-4679-b3b1-2244f979c0a7	g.chr17:42475015G>C	ENST00000434000.1	-	9	4478	c.4196C>G	c.(4195-4197)aCt>aGt	p.T1399S	GPATCH8_ENST00000591680.1_Missense_Mutation_p.T1477S			Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	1477						intracellular	nucleic acid binding|zinc ion binding	p.A1474_A1478delAAATA(1)		breast(4)|endometrium(7)|kidney(6)|large_intestine(4)|liver(2)|lung(21)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	50		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		GTGAAGTGCAGTGGCAGCTGC	0.612000													9	20					0	0	0.004482	0	0
AJ271736.10	0	broad.mit.edu	37	X	155254735	155254735	+	RNA	SNP	C	C	G			TCGA-EL-A3CZ-01A-11D-A19J-08	TCGA-EL-A3CZ-10A-01D-A19M-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	25c1a1a4-82e1-485a-afce-cafaed57945f	15fb2f33-0687-4679-b3b1-2244f979c0a7	g.chrX:155254735C>G	ENST00000285718.7	+	0	1180				WASH6P_ENST00000461007.1_RNA														p.L425V(1)									GATGTCGGATCTCTTCAACAA	0.587000													5	8					0	0	0.001168	0	0
RRN3P2	0	broad.mit.edu	37	16	29110458	29110458	+	RNA	SNP	T	T	C	rs151074589	by1000genomes	TCGA-EL-A3CZ-01A-11D-A19J-08	TCGA-EL-A3CZ-10A-01D-A19M-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	25c1a1a4-82e1-485a-afce-cafaed57945f	15fb2f33-0687-4679-b3b1-2244f979c0a7	g.chr16:29110458T>C	ENST00000564580.1	+	0	1131																		p.W375R(25)									GAATTTTGAGTGGATAGTGAT	0.328000													4	47					0	0	0.014758	0	0
HRAS	3265	broad.mit.edu	37	11	533874	533874	+	Missense_Mutation	SNP	T	T	C	rs121913233		TCGA-EL-A3CZ-01A-11D-A19J-08	TCGA-EL-A3CZ-10A-01D-A19M-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	25c1a1a4-82e1-485a-afce-cafaed57945f	15fb2f33-0687-4679-b3b1-2244f979c0a7	g.chr11:533874T>C	ENST00000417302.1	-	3	369	c.182A>G	c.(181-183)cAg>cGg	p.Q61R	HRAS_ENST00000397594.1_Missense_Mutation_p.Q61R|HRAS_ENST00000468682.2_5'UTR|HRAS_ENST00000397596.2_Missense_Mutation_p.Q61R|HRAS_ENST00000451590.1_Missense_Mutation_p.Q61R|HRAS_ENST00000311189.7_Missense_Mutation_p.Q61R	NM_176795.3	NP_789765.1	P01112	RASH_HUMAN	Harvey rat sarcoma viral oncogene homolog	61			Q -> K (in follicular thyroid carcinoma samples; somatic mutation; increases transformation of cultured cell lines; dbSNP:rs28933406).|Q -> L (in melanoma; strongly reduced GTP hydrolysis in the presence of RAF1; increases transformation of cultured cell lines).		activation of MAPKK activity|axon guidance|blood coagulation|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|Ras protein signal transduction|synaptic transmission	cytosol|Golgi membrane|plasma membrane	GTP binding|GTPase activity|protein C-terminus binding	p.Q61R(136)|p.Q61L(117)|p.Q61P(3)		adrenal_gland(1)|bone(3)|breast(7)|cervix(23)|endometrium(4)|haematopoietic_and_lymphoid_tissue(12)|kidney(1)|large_intestine(2)|liver(1)|lung(16)|oesophagus(2)|penis(2)|pituitary(10)|prostate(31)|salivary_gland(24)|skin(184)|soft_tissue(38)|stomach(14)|testis(5)|thymus(1)|thyroid(173)|upper_aerodigestive_tract(122)|urinary_tract(225)	901		all_cancers(49;4.37e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;7.63e-28)|Epithelial(43;7.29e-27)|OV - Ovarian serous cystadenocarcinoma(40;7.15e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Sulindac(DB00605)	GTACTCCTCCTGGCCGGCGGT	0.597000	Q61L(KNS62_LUNG)|Q61L(KYSE30_OESOPHAGUS)|Q61L(NCIH1915_LUNG)	6	Mis		"""infrequent sarcomas, rare other types"""	"""rhadomyosarcoma, ganglioneuroblastoma, bladder"""			Costello syndrome	HNSCC(11;0.0054)			32	46					0	0	0.013726	0	0
GNPAT	8443	broad.mit.edu	37	1	231411916	231411916	+	Missense_Mutation	SNP	C	C	T			TCGA-EL-A3CZ-01A-11D-A19J-08	TCGA-EL-A3CZ-10A-01D-A19M-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	25c1a1a4-82e1-485a-afce-cafaed57945f	15fb2f33-0687-4679-b3b1-2244f979c0a7	g.chr1:231411916C>T	ENST00000366647.4	+	15	2142	c.1973C>T	c.(1972-1974)gCc>gTc	p.A658V	GNPAT_ENST00000366646.3_Missense_Mutation_p.A597V|GNPAT_ENST00000469332.1_3'UTR	NM_014236.3	NP_055051.1	O15228	GNPAT_HUMAN	glyceronephosphate O-acyltransferase	658					ether lipid biosynthetic process|fatty acid metabolic process|organ morphogenesis	peroxisomal matrix|peroxisomal membrane	glycerone-phosphate O-acyltransferase activity			breast(2)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(9)|ovary(3)|prostate(1)|skin(1)	23	Breast(184;0.0871)	all_cancers(173;0.2)|Prostate(94;0.183)				AATGAACCTGCCACAACCAAA	0.274000													4	17					0	0	0.009096	0	0
PHIP	55023	broad.mit.edu	37	6	79707237	79707237	+	Missense_Mutation	SNP	G	G	A			TCGA-EL-A3CZ-01A-11D-A19J-08	TCGA-EL-A3CZ-10A-01D-A19M-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	25c1a1a4-82e1-485a-afce-cafaed57945f	15fb2f33-0687-4679-b3b1-2244f979c0a7	g.chr6:79707237G>A	ENST00000275034.4	-	19	2262	c.2095C>T	c.(2095-2097)Cgg>Tgg	p.R699W		NM_017934.5	NP_060404.3	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	699					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			NS(1)|breast(1)|central_nervous_system(2)|endometrium(10)|kidney(4)|large_intestine(20)|lung(20)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	68		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		TGCATTTGCCGTACACCTTCA	0.468000													31	55					0	0	0.010818	0	0
BTRC	8945	broad.mit.edu	37	10	103292735	103292735	+	Silent	SNP	C	C	T			TCGA-EL-A3CZ-01A-11D-A19J-08	TCGA-EL-A3CZ-10A-01D-A19M-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	25c1a1a4-82e1-485a-afce-cafaed57945f	15fb2f33-0687-4679-b3b1-2244f979c0a7	g.chr10:103292735C>T	ENST00000370187.3	+	9	1123	c.1005C>T	c.(1003-1005)tgC>tgT	p.C335C	BTRC_ENST00000408038.2_Silent_p.C299C|BTRC_ENST00000393441.4_Silent_p.C294C	NM_033637.3	NP_378663.1	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing E3 ubiquitin protein ligase	335					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				endometrium(4)|kidney(2)|large_intestine(6)|lung(11)|ovary(2)|stomach(1)|urinary_tract(1)	27		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)		CATTGGAATGCAAGCGAATTC	0.438000													6	90					0	0	0.001168	0	0
RAPH1	65059	broad.mit.edu	37	2	204304820	204304821	+	Frame_Shift_Ins	INS	-	-	T			TCGA-EL-A3CZ-01A-11D-A19J-08	TCGA-EL-A3CZ-10A-01D-A19M-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	25c1a1a4-82e1-485a-afce-cafaed57945f	15fb2f33-0687-4679-b3b1-2244f979c0a7	g.chr2:204304820_204304821insT	ENST00000319170.5	-	14	3391_3392	c.3092_3093insA	c.(3091-3093)actfs	p.T1031fs	RAPH1_ENST00000374493.3_Frame_Shift_Ins_p.T1083fs|RAPH1_ENST00000457812.1_Intron	NM_213589.1	NP_998754.1	Q70E73	RAPH1_HUMAN	Ras association (RalGDS/AF-6) and pleckstrin homology domains 1	1031					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				breast(5)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(7)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	32						CTCCAGAAAGATTGAGTTTTCC	0.545													39	66	---	---	---	---					
HMGB3P22	0	broad.mit.edu	37	5	179121146	179121152	+	RNA	DEL	AAAAAAA	AAAAAAA	-	rs10553251		TCGA-EL-A3CZ-01A-11D-A19J-08	TCGA-EL-A3CZ-10A-01D-A19M-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	25c1a1a4-82e1-485a-afce-cafaed57945f	15fb2f33-0687-4679-b3b1-2244f979c0a7	g.chr5:179121146_179121152delAAAAAAA	ENST00000442010.2	+	0	253																											actccgtctcaaaaaaaaaaaaaaaaa	0.483													2	4	---	---	---	---					
RP11-252A24.2	0	broad.mit.edu	37	16	74372915	74372915	+	RNA	DEL	T	T	-	rs67181940		TCGA-EL-A3CZ-01A-11D-A19J-08	TCGA-EL-A3CZ-10A-01D-A19M-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	25c1a1a4-82e1-485a-afce-cafaed57945f	15fb2f33-0687-4679-b3b1-2244f979c0a7	g.chr16:74372915delT	ENST00000429810.2	-	0	1404																											ACGTAGtttgttttttttttt	0.438													3	5	---	---	---	---					
BAGE2	85319	broad.mit.edu	37	21	11085863	11085864	+	RNA	INS	-	-	C			TCGA-EL-A3CZ-01A-11D-A19J-08	TCGA-EL-A3CZ-10A-01D-A19M-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	25c1a1a4-82e1-485a-afce-cafaed57945f	15fb2f33-0687-4679-b3b1-2244f979c0a7	g.chr21:11085863_11085864insC	ENST00000470054.1	-	0	324									B melanoma antigen family, member 2															Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		catcaccaccaccaccatcacc	0.579													2	4	---	---	---	---					
