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
TPTE2P6	0	broad.mit.edu	37	13	25168432	25168432	+	RNA	SNP	T	T	C	rs149337771	by1000genomes	TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr13:25168432T>C	ENST00000453498.1	+	0	1104																											TTGAAACAGCTGGTGTATTAA	0.373000													3	34					0	0	1	0	0
RASA1	5921	broad.mit.edu	37	5	86675610	86675610	+	Missense_Mutation	SNP	T	T	C			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr5:86675610T>C	ENST00000456692.2	+	19	2130	c.2015T>C	c.(2014-2016)tTg>tCg	p.L672S	RASA1_ENST00000512763.1_Missense_Mutation_p.L682S|RASA1_ENST00000274376.6_Missense_Mutation_p.L849S|RASA1_ENST00000506290.1_Missense_Mutation_p.L683S	NM_022650.2	NP_072179.1	P20936	RASA1_HUMAN	RAS p21 protein activator (GTPase activating protein) 1	849	C2.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			NS(1)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(12)|lung(13)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	48		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		ACACACCTATTGAACATACTT	0.308000													11	56					0	0	1	0	0
TCN2	6948	broad.mit.edu	37	22	31010337	31010337	+	Splice_Site	SNP	G	G	A			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr22:31010337G>A	ENST00000215838.3	+	4	923	c.427_splice	c.e4-1	p.G143_splice	TCN2_ENST00000405742.3_Splice_Site_p.G139_splice|TCN2_ENST00000407817.3_Splice_Site_p.W116_splice			P20062	TCO2_HUMAN	transcobalamin II	143					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular space	cobalamin binding	p.G143G(1)		central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(6)|prostate(2)|urinary_tract(1)	22					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CCCTCTCAGGGCATGATCACA	0.622000													6	37					0	0	1	0	0
SRP14	6727	broad.mit.edu	37	15	40328597	40328597	+	Silent	SNP	T	T	G			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr15:40328597T>G	ENST00000267884.6	-	5	419	c.348A>C	c.(346-348)gcA>gcC	p.A116A	SRP14_ENST00000560773.1_Silent_p.A36A|SRP14_ENST00000558720.1_Silent_p.A36A|SRP14_ENST00000558527.1_5'UTR	NM_003134.4	NP_003125.3	P37108	SRP14_HUMAN	signal recognition particle 14kDa (homologous Alu RNA binding protein)	116	Ala/Thr-rich.				negative regulation of translational elongation|response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|endoplasmic reticulum signal peptide binding|protein binding			endometrium(1)|skin(1)|upper_aerodigestive_tract(1)	3		all_cancers(109;7.56e-18)|all_epithelial(112;4.02e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.84e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0505)		ctgcggcaggtgctgctgctg	0.483000													6	61					0	0	1	0	0
HBM	3042	broad.mit.edu	37	16	216306	216306	+	Silent	SNP	G	G	A			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr16:216306G>A	ENST00000356815.3	+	2	152	c.132G>A	c.(130-132)ccG>ccA	p.P44P	HBM_ENST00000472539.1_3'UTR	NM_001003938.3	NP_001003938.1	Q6B0K9	HBM_HUMAN	hemoglobin, mu	44						hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity						all_cancers(16;1.62e-06)|all_epithelial(16;4.01e-06)|Hepatocellular(16;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)				TCTACTTCCCGCACCTGAGCG	0.701000													3	17					0	0	1	0	0
KIAA0907	22889	broad.mit.edu	37	1	155887393	155887393	+	Missense_Mutation	SNP	T	T	G			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr1:155887393T>G	ENST00000368320.3	-	11	1362	c.1337A>C	c.(1336-1338)cAg>cCg	p.Q446P	KIAA0907_ENST00000368321.3_Missense_Mutation_p.Q446P			Q7Z7F0	K0907_HUMAN	KIAA0907	446	Pro-rich.									breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|liver(1)|lung(11)|urinary_tract(1)	21	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			gggctggggctggggctgggg	0.567000													9	47					0	0	1	0	0
POLL	27343	broad.mit.edu	37	10	103339245	103339245	+	Missense_Mutation	SNP	G	G	A			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr10:103339245G>A	ENST00000370162.3	-	9	2187	c.1693C>T	c.(1693-1695)Ctc>Ttc	p.L565F	POLL_ENST00000456836.2_Missense_Mutation_p.L302F|POLL_ENST00000299206.4_Missense_Mutation_p.L565F|POLL_ENST00000370168.3_Missense_Mutation_p.L238F|POLL_ENST00000370158.3_Missense_Mutation_p.L290F|DPCD_ENST00000416979.2_Intron|DPCD_ENST00000470165.1_Intron|POLL_ENST00000370172.1_Missense_Mutation_p.L477F|POLL_ENST00000463515.1_5'UTR|POLL_ENST00000370169.1_Missense_Mutation_p.L565F|POLL_ENST00000339310.3_Missense_Mutation_p.L288F	NM_001174084.1|NM_001174085.1|NM_013274.3	NP_001167555.1|NP_001167556.1|NP_037406.1	Q9UGP5	DPOLL_HUMAN	polymerase (DNA directed), lambda	565					DNA replication|nucleotide-excision repair|somatic hypermutation of immunoglobulin genes	nucleus	DNA binding|DNA-directed DNA polymerase activity|lyase activity|metal ion binding			biliary_tract(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(2)|lung(7)|upper_aerodigestive_tract(2)	19		Colorectal(252;0.234)		Epithelial(162;1.55e-08)|all cancers(201;6.64e-07)		CGGTAGGGGAGGCCTAAGAGC	0.642000								DNA polymerases (catalytic subunits)					20	49					0	0	1	0	0
ARSG	22901	broad.mit.edu	37	17	66347794	66347794	+	Missense_Mutation	SNP	G	G	A			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr17:66347794G>A	ENST00000448504.2	+	5	1329	c.533G>A	c.(532-534)tGt>tAt	p.C178Y	ARSG_ENST00000582154.1_3'UTR|ARSG_ENST00000452479.2_Missense_Mutation_p.C14Y	NM_014960.4	NP_055775.2	Q96EG1	ARSG_HUMAN	arylsulfatase G	178					sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			NS(2)|endometrium(3)|kidney(1)|large_intestine(8)|lung(8)|ovary(1)|prostate(1)|stomach(1)|urinary_tract(1)	26			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			CACCCTCCTTGTCCAGCGTGT	0.483000													50	87					0	0	1	0	0
ARMC12	221481	broad.mit.edu	37	6	35716418	35716418	+	Missense_Mutation	SNP	C	C	T			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr6:35716418C>T	ENST00000373866.3	+	6	816	c.794C>T	c.(793-795)cCc>cTc	p.P265L	ARMC12_ENST00000373869.3_Missense_Mutation_p.P255L|ARMC12_ENST00000288065.2_Missense_Mutation_p.P292L			Q5T9G4	CF081_HUMAN	armadillo repeat containing 12	265							binding										CGGAACGCACCCCACTACCAC	0.562000													31	77					0	0	1	0	0
ZNF492	57615	broad.mit.edu	37	19	22847457	22847457	+	Missense_Mutation	SNP	G	G	C			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr19:22847457G>C	ENST00000456783.2	+	4	1230	c.986G>C	c.(985-987)aGa>aCa	p.R329T		NM_020855.2	NP_065906.1	Q9P255	ZN492_HUMAN	zinc finger protein 492	329					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	p.R329I(1)		endometrium(1)|kidney(1)|large_intestine(6)|lung(10)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				ACACATAAGAGAATTCATTCT	0.378000													5	33					0	0	1	0	0
TM7SF2	7108	broad.mit.edu	37	11	64880883	64880883	+	Missense_Mutation	SNP	T	T	G			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr11:64880883T>G	ENST00000279263.7	+	4	658	c.496T>G	c.(496-498)Tca>Gca	p.S166A	TM7SF2_ENST00000540748.1_Missense_Mutation_p.S50A|TM7SF2_ENST00000531029.1_3'UTR|TM7SF2_ENST00000345348.5_Missense_Mutation_p.S166A	NM_003273.2	NP_003264.2	O76062	ERG24_HUMAN	transmembrane 7 superfamily member 2	166					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane	delta14-sterol reductase activity			lung(14)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	18						TGGGGGGAACTCAGGTGAGAG	0.567000											OREG0021072	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	145					0	0	1	0	0
PSMC4	5704	broad.mit.edu	37	19	40480666	40480666	+	Missense_Mutation	SNP	G	G	A			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr19:40480666G>A	ENST00000157812.2	+	6	802	c.604G>A	c.(604-606)Gtc>Atc	p.V202I	PSMC4_ENST00000455878.2_Missense_Mutation_p.V171I	NM_006503.3|NM_153001.2	NP_006494.1|NP_694546.1	P43686	PRS6B_HUMAN	proteasome (prosome, macropain) 26S subunit, ATPase, 4	202					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding			autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|large_intestine(3)|lung(7)|ovary(1)|prostate(2)|urinary_tract(1)	19	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					CCCCCGAGGCGTCCTCATGTA	0.622000													24	54					0	0	1	0	0
TENC1	23371	broad.mit.edu	37	12	53457578	53457578	+	Missense_Mutation	SNP	G	G	A			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr12:53457578G>A	ENST00000314250.6	+	29	4432	c.4142G>A	c.(4141-4143)tGt>tAt	p.C1381Y	TENC1_ENST00000546602.1_Missense_Mutation_p.C1284Y|TENC1_ENST00000379902.3_Missense_Mutation_p.C1257Y|TENC1_ENST00000314276.3_Missense_Mutation_p.C1391Y|TENC1_ENST00000552570.1_Missense_Mutation_p.C1379Y|TENC1_ENST00000549700.1_Missense_Mutation_p.C1316Y|TENC1_ENST00000451358.1_Missense_Mutation_p.C1371Y	NM_170754.2	NP_736610.2	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase (tensin 2)	1381					intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(3)|liver(2)|lung(19)|ovary(1)|pancreas(1)|stomach(3)	34						GAGAATGTGTGTCACCTCTTT	0.537000													85	139					0	0	1	0	0
CCBL2	56267	broad.mit.edu	37	1	89427829	89427829	+	Splice_Site	SNP	C	C	T			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr1:89427829C>T	ENST00000260508.4	-	6	791		c.e6-1		CCBL2_ENST00000370485.2_Splice_Site|CCBL2_ENST00000370491.3_Splice_Site|CCBL2_ENST00000446900.2_Splice_Site	NM_001008661.2	NP_001008661.1	Q6YP21	KAT3_HUMAN	cysteine conjugate-beta lyase 2						biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			endometrium(3)|kidney(4)|large_intestine(2)|lung(4)|ovary(2)|skin(2)|soft_tissue(1)	18		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	TTAGTATGACCTGCAATAAAA	0.403000													24	59					0	0	1	0	0
HSD17B7P2	0	broad.mit.edu	37	10	38654432	38654432	+	RNA	SNP	A	A	G	rs2257765		TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr10:38654432A>G	ENST00000494540.1	+	0	599					NR_003086.1																						TCATCTCGCAATGCAAGGAAA	0.453000													5	65					0	0	1	0	0
LL22NC03-80A10.6	0	broad.mit.edu	37	22	22664606	22664606	+	RNA	SNP	A	A	G			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr22:22664606A>G	ENST00000426066.1	+	0	787					NR_027293.1																						GTCTTCATGCAAACTTGGTAT	0.398000													3	25					0	0	1	0	0
CHP1	11261	broad.mit.edu	37	15	41571574	41571574	+	Missense_Mutation	SNP	G	G	T			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr15:41571574G>T	ENST00000334660.5	+	7	815	c.575G>T	c.(574-576)cGa>cTa	p.R192L	CHP1_ENST00000560397.1_Missense_Mutation_p.R151L|CHP1_ENST00000558351.1_3'UTR	NM_007236.4	NP_009167.1	Q99653	CHP1_HUMAN	calcineurin-like EF-hand protein 1	192					potassium ion transport|small GTPase mediated signal transduction		potassium channel regulator activity										ATGAGCATCCGATTTCTTCAC	0.443000													11	49					1.58986e-06	1.76652e-06	1	1	0
CRYAB	1410	broad.mit.edu	37	11	111780950	111780950	+	Missense_Mutation	SNP	G	G	T			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr11:111780950G>T	ENST00000533971.1	-	2	516	c.425C>A	c.(424-426)cCa>cAa	p.P142Q	CRYAB_ENST00000526180.1_Intron|CRYAB_ENST00000527950.1_Intron|CRYAB_ENST00000227251.3_Intron|CRYAB_ENST00000525823.1_Intron|CRYAB_ENST00000533475.1_Intron|CRYAB_ENST00000533280.1_Intron|CRYAB_ENST00000531198.1_Intron			P02511	CRYAB_HUMAN	crystallin, alpha B	0					anti-apoptosis|muscle contraction|negative regulation of intracellular transport|protein folding|protein homooligomerization|response to heat	cytoplasm|nucleus	protein homodimerization activity|structural constituent of eye lens|unfolded protein binding			endometrium(1)|large_intestine(1)|lung(2)|skin(4)	8		all_cancers(61;1.26e-15)|all_epithelial(67;9.52e-10)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.57e-07)|BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|all cancers(92;6.57e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.051)		GTTATGGCTTGGGACTGGAAT	0.418000													5	17					0.000274275	0.000285703	1	1	0
FGD1	2245	broad.mit.edu	37	X	54496615	54496615	+	Missense_Mutation	SNP	G	G	A	rs28935498		TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chrX:54496615G>A	ENST00000375135.3	-	4	1668	c.935C>T	c.(934-936)cCt>cTt	p.P312L		NM_004463.2	NP_004454.2	P98174	FGD1_HUMAN	FYVE, RhoGEF and PH domain containing 1	312	Pro-rich.		P -> L (in non-syndromal X-linked mental retardation; dbSNP:rs28935498).		actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			NS(1)|breast(2)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(10)|lung(8)|ovary(3)|pancreas(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	39						AGGGGGCCCAGGGCAGAGGCT	0.662000													2	8					0	0	1	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	A	T	rs121913377		TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	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				30	75					0	0	1	0	0
RP11-417J8.6	0	broad.mit.edu	37	1	142699959	142699960	+	RNA	INS	-	-	A	rs74315780		TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr1:142699959_142699960insA	ENST00000369381.2	-	0	2077																											tatatatatatatatatCCAAA	0.257													2	4	---	---	---	---					
ETAA1	54465	broad.mit.edu	37	2	67624765	67624766	+	Frame_Shift_Ins	INS	-	-	T			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr2:67624765_67624766insT	ENST00000272342.5	+	1	315_316	c.185_186insT	c.(184-186)cccfs	p.P62fs		NM_019002.3	NP_061875.2	Q9NY74	ETAA1_HUMAN	Ewing tumor-associated antigen 1	62						cytoplasm|nucleus				autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(9)|ovary(3)|prostate(1)|stomach(3)|urinary_tract(1)	33						CGAGAGCAGCCTCCGACCGCCG	0.713													2	4	---	---	---	---					
ZNF717	100131827	broad.mit.edu	37	3	75790810	75790811	+	Frame_Shift_Ins	INS	-	-	T	rs76346895		TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr3:75790810_75790811insT	ENST00000422325.1	-	3	456_457	c.134_135insA	c.(133-135)actfs	p.T45fs	ZNF717_ENST00000491507.1_5'UTR|ZNF717_ENST00000477374.1_Frame_Shift_Ins_p.T45fs|ZNF717_ENST00000478296.1_5'UTR|ZNF717_ENST00000400845.3_Frame_Shift_Ins_p.T38fs	NM_001128223.1	NP_001121695.1	C9JSV9	C9JSV9_HUMAN	zinc finger protein 717	45					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			autonomic_ganglia(6)|endometrium(3)|lung(2)|ovary(1)|stomach(7)	19						CCCTGTACAGGGTCCTCTGAGC	0.510													2	4	---	---	---	---					
ATXN1	6310	broad.mit.edu	37	6	16327913	16327915	+	In_Frame_Del	DEL	TGA	TGA	-	rs11969612	by1000genomes	TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr6:16327913_16327915delTGA	ENST00000244769.4	-	8	1563_1565	c.627_629delTCA	c.(625-630)cag>ca	p.HQ211del	ATXN1_ENST00000436367.1_In_Frame_Del_p.HQ211del	NM_000332.3	NP_000323.2	P54253	ATX1_HUMAN	ataxin 1	211	Poly-Gln.			H -> HQ (in Ref. 1; CAA55793).	cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association	p.H209delH(2)|p.H209_H211delHQH(1)		NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(11)|lung(12)|prostate(2)|skin(7)|upper_aerodigestive_tract(2)	44	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				ctgctgatgctgatgctgctgct	0.665													8	15	---	---	---	---					
LINC00271	0	broad.mit.edu	37	6	135853918	135853920	+	RNA	DEL	GAG	GAG	-			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr6:135853918_135853920delGAG	ENST00000421378.2	+	0	147					NR_026805.1																						ggaagaggaagaggaggaggaag	0.478													4	5	---	---	---	---					
KRTAP5-2	440021	broad.mit.edu	37	11	1619173	1619202	+	In_Frame_Del	DEL	CCCCCACAGGAGCCACAGCCCCCCTTGGAG	CCCCCACAGGAGCCACAGCCCCCCTTGGAG	-	rs61869706	by1000genomes	TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr11:1619173_1619202delCCCCCACAGGAGCCACAGCCCCCCTTGGAG	ENST00000412090.1	-	1	322_351	c.279_308delCTCCAAGGGGGGCTGTGGCTCCTGTGGGGG	c.(277-309)ggt>gg	p.GSKGGCGSCGG93del	KRTAP5-AS1_ENST00000424148.1_RNA	NM_001004325.1	NP_001004325.1	Q701N4	KRA52_HUMAN	keratin associated protein 5-2	93	6 X 4 AA repeats of C-C-X-P.					keratin filament				large_intestine(1)|lung(2)|skin(1)	4		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		CCCCTTGGAACCCCCACAGGAGCCACAGCCCCCCTTGGAGCCCCCACAGG	0.657													33	267	---	---	---	---					
CLIP1	6249	broad.mit.edu	37	12	122812690	122812691	+	Frame_Shift_Ins	INS	-	-	T			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr12:122812690_122812691insT	ENST00000358808.2	-	16	3173_3174	c.3019_3020insA	c.(3019-3021)ccafs	p.P1007fs	CLIP1_ENST00000361654.4_Frame_Shift_Ins_p.P896fs|CLIP1_ENST00000302528.7_Frame_Shift_Ins_p.P1007fs|CLIP1_ENST00000545889.1_Frame_Shift_Ins_p.P593fs|CLIP1_ENST00000540338.1_Frame_Shift_Ins_p.P1018fs|CLIP1_ENST00000537178.1_Frame_Shift_Ins_p.P972fs	NM_001247997.1|NM_002956.2	NP_001234926.1|NP_002947.1	P30622	CLIP1_HUMAN	CAP-GLY domain containing linker protein 1	1018					mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			NS(1)|breast(5)|endometrium(4)|kidney(5)|large_intestine(16)|liver(1)|lung(21)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	60	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		CTGGTTGTGGCTTGTTTCCATT	0.505													8	277	---	---	---	---					
OR4N2	390429	broad.mit.edu	37	14	20296055	20296056	+	Frame_Shift_Ins	INS	-	-	T	rs149523724	by1000genomes	TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr14:20296055_20296056insT	ENST00000315947.1	+	1	448_449	c.448_449insT	c.(448-450)tggfs	p.W150fs	OR4N2_ENST00000568211.1_Frame_Shift_Ins_p.W150fs	NM_001004723.1	NP_001004723.1	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N, member 2	150					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|liver(1)|lung(32)|ovary(2)|prostate(1)|skin(2)|stomach(2)	52	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GGCTCTGTGGCTTGGGGGTTTT	0.530													48	374	---	---	---	---					
OR4N4	283694	broad.mit.edu	37	15	22382920	22382921	+	Frame_Shift_Ins	INS	-	-	T			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr15:22382920_22382921insT	ENST00000328795.4	+	1	539_540	c.448_449insT	c.(448-450)tggfs	p.W150fs	RP11-69H14.6_ENST00000558896.1_RNA	NM_001005241.2	NP_001005241.2	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N, member 4	150					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|endometrium(3)|kidney(3)|large_intestine(6)|lung(19)|ovary(4)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	40		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GGCTCTGTGGCTTGGGGGTTTT	0.535													59	370	---	---	---	---					
FRG1B	0	broad.mit.edu	37	20	29625899	29625900	+	Frame_Shift_Ins	INS	-	-	AT			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr20:29625899_29625900insAT	ENST00000278882.3	+	5	523_524	c.143_144insAT	c.(142-144)atafs	p.I48fs	FRG1B_ENST00000439954.2_Frame_Shift_Ins_p.I53fs|FRG1B_ENST00000358464.4_Frame_Shift_Ins_p.I48fs																endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						GGCTATGGAAAATATCTTGGTA	0.342													7	207	---	---	---	---					
BAGE2	85319	broad.mit.edu	37	21	11085940	11085942	+	RNA	DEL	CAC	CAC	-			TCGA-ET-A40Q-01A-11D-A23M-08	TCGA-ET-A40Q-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dfe288f0-ec44-4a22-8136-fd5ee948f101	bf959b0c-98bf-4bc9-af29-4fed90522963	g.chr21:11085940_11085942delCAC	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)		ccaccaccatcaccaccaccacc	0.532													5	2	---	---	---	---					
