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
CELSR2	1952	broad.mit.edu	37	1	109804140	109804140	+	Missense_Mutation	SNP	C	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr1:109804140C>T	uc001dxa.3	+	4	4248	c.4187C>T	c.(4186-4188)GCC>GTC	p.A1396V		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	1396	Extracellular (Potential).|Laminin G-like 1.				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		TTCAGGTTTGCCACAAAGGAG	0.602000													6	195					0	0	0.000274275	0	0
OR2B11	127623	broad.mit.edu	37	1	247614382	247614382	+	Missense_Mutation	SNP	C	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr1:247614382C>T	uc010pyx.1	-	1	903	c.903G>A	c.(901-903)ATG>ATA	p.M301I		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GAGCCCCCTTCATATCTTTAT	0.468000													71	168					0	0	0.000781405	0	0
MYO3A	53904	broad.mit.edu	37	10	26463096	26463097	+	Missense_Mutation	DNP	GG	AA	AA			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr10:26463096_26463097GG>AA	uc001isn.2	+	30	4263_4264	c.3903_3904GG>AA	c.(3901-3906)ATGGAA>ATAAAA	p.1301_1302ME>IK	MYO3A_uc009xkp.1_Intron|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1301_1302					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						CAAACAGCATGGAAAAAGAAAA	0.450000													23	17					0	0	6.4e-05	0	0
Unknown	0	broad.mit.edu	37	11	30944050	30944050	+	RNA	SNP	C	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr11:30944050C>T	uc001mss.1	-	2		c.236G>A			uc009yjk.1_Missense_Mutation_p.A493T					Homo sapiens mRNA for KIAA1493 protein, partial cds.																		CAATGCTTACCTTCTATTTTA	0.308000													20	32					0	0	0.00152264	0	0
FAT3	120114	broad.mit.edu	37	11	92523221	92523221	+	Missense_Mutation	SNP	A	C	C			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr11:92523221A>C	uc001pdj.3	+	7	4465	c.4448A>C	c.(4447-4449)GAA>GCA	p.E1483A		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1483	Cadherin 14.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CTGCAGATTGAAGCCACAGAT	0.473000										TCGA Ovarian(4;0.039)			128	183					0	0	0.000781405	0	0
SC5DL	6309	broad.mit.edu	37	11	121178150	121178150	+	Missense_Mutation	SNP	C	T	T	rs118099079	by1000genomes	TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr11:121178150C>T	uc001pxu.2	+	5	977	c.829C>T	c.(829-831)CGC>TGC	p.R277C	SC5DL_uc001pxt.2_3'UTR|SC5DL_uc001pxv.2_Missense_Mutation_p.R277C	NM_006918	NP_008849	O75845	SC5D_HUMAN	sterol-C5-desaturase	277				PQILQPFINGSAHHTDHHMFFDYNYGQYFTLWDRIGGSFKN PSSFEGKGPLSYVKEMTEGKRSSHSGNGCKNEKLFNGEFTK TE -> RMKNYSMESLQRLNRLLPSYS (in Ref. 1; BAA18970).	fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	C-5 sterol desaturase activity|iron ion binding|lathosterol oxidase activity			ovary(1)	1		Breast(109;0.00328)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)	OV - Ovarian serous cystadenocarcinoma(1;0.0334)	BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.144)		AGAGGGAAAGCGCAGCAGCCA	0.413000													11	23					0	0	0.000978159	0	0
DDX11	1663	broad.mit.edu	37	12	31237922	31237922	+	Missense_Mutation	SNP	G	C	C			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr12:31237922G>C	uc001rjt.1	+	5	751	c.500G>C	c.(499-501)AGA>ACA	p.R167T	DDX11_uc010sjw.1_Missense_Mutation_p.R167T|DDX11_uc010sjx.1_RNA|DDX11_uc001rjr.1_Missense_Mutation_p.R167T|DDX11_uc001rjs.1_Missense_Mutation_p.R167T|DDX11_uc001rju.1_5'UTR|DDX11_uc001rjv.1_Missense_Mutation_p.R167T|DDX11_uc001rjw.1_Missense_Mutation_p.R141T|DDX11_uc001rjx.1_5'Flank	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	167	Glu-rich.|Helicase ATP-binding.				G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					GAAGAAGAAAGAGAGAATCTC	0.612000										Multiple Myeloma(12;0.14)			3	16					0	0	6.4e-05	0	0
ADAM20	8748	broad.mit.edu	37	14	70991372	70991372	+	Missense_Mutation	SNP	G	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr14:70991372G>T	uc001xme.2	-	2	498	c.253C>A	c.(253-255)CAG>AAG	p.Q85K		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	35					proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		GTGAAATACTGGGAGGGCCTG	0.557000													13	11					2.27111e-07	1.29169e-06	0.00136819	1	0
SERPINA13	388007	broad.mit.edu	37	14	95111314	95111314	+	Missense_Mutation	SNP	C	A	A			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr14:95111314C>A	uc001ydt.2	+	4	1134	c.1046C>A	c.(1045-1047)CCC>CAC	p.P349H		NR_015340				RecName: Full=Serpin A13; Flags: Precursor;											lung(1)|skin(1)	2						TTCCACTTCCCCAAATTTTCC	0.522000													19	18					7.45023e-12	4.67566e-11	0.00152264	1	0
CD19	930	broad.mit.edu	37	16	28943670	28943670	+	Missense_Mutation	SNP	G	A	A			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr16:28943670G>A	uc002drs.2	+	2	154	c.92G>A	c.(91-93)GGA>GAA	p.G31E	uc010vct.1_Intron|CD19_uc010byo.1_Missense_Mutation_p.G31E	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	31	Extracellular (Potential).|Ig-like C2-type 1.				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						TCCACAGAGGGAGATAACGCT	0.592000													11	14					0	0	0.000673444	0	0
KRT10	3858	broad.mit.edu	37	17	38976882	38976882	+	Missense_Mutation	SNP	C	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr17:38976882C>T	uc002hvi.2	-	3	774	c.748G>A	c.(748-750)GCT>ACT	p.A250T	KRT10_uc010cxd.2_5'Flank|TMEM99_uc002hvj.1_Intron	NM_000421	NP_000412	P13645	K1C10_HUMAN	keratin 10	250	Coil 1B.|Rod.|Gly-rich.				epidermis development		protein binding|structural constituent of epidermis				0		Breast(137;0.000301)				TTGATGTCAGCCTCCACGCTC	0.507000													23	31					0	0	0.000375601	0	0
FAM134C	162427	broad.mit.edu	37	17	40761321	40761321	+	Missense_Mutation	SNP	G	C	C			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr17:40761321G>C	uc002ial.2	-	1	125	c.22C>G	c.(22-24)CCC>GCC	p.P8A	TUBG1_uc002ian.2_5'Flank|FAM134C_uc010wgq.1_5'UTR|FAM134C_uc002iam.1_5'UTR|FAM134C_uc010cyk.1_Intron	NM_178126	NP_835227	Q86VR2	F134C_HUMAN	hypothetical protein LOC162427	8						integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.134)		GGGGTCGTGGGAACCCCTTCG	0.687000													13	33					0	0	0.000219431	0	0
MBTD1	54799	broad.mit.edu	37	17	49279428	49279428	+	Silent	SNP	C	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr17:49279428C>T	uc002itr.3	-	11	1418	c.1074G>A	c.(1072-1074)AAG>AAA	p.K358K	MBTD1_uc002itp.3_Silent_p.K194K|MBTD1_uc002itq.3_Silent_p.K358K	NM_017643	NP_060113	Q05BQ5	MBTD1_HUMAN	mbt domain containing 1	358	MBT 3.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(22;1.54e-08)			CATCCTGTTTCTTTGTAATAT	0.343000													12	31					0	0	0.000308642	0	0
HSF5	124535	broad.mit.edu	37	17	56565264	56565264	+	Silent	SNP	G	A	A			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr17:56565264G>A	uc002iwi.1	-	1	496	c.372C>T	c.(370-372)CTC>CTT	p.L124L		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	124	By similarity.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGAGGTGCACGAGCAGCTGTG	0.711000													5	43					0	0	0.000157383	0	0
ZNF83	55769	broad.mit.edu	37	19	53116885	53116885	+	Silent	SNP	A	G	G	rs7247257		TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr19:53116885A>G	uc002pzu.3	-	2	2177	c.933T>C	c.(931-933)CAT>CAC	p.H311H	ZNF83_uc002pzv.3_Silent_p.H311H|ZNF83_uc010eps.2_Silent_p.H283H|ZNF83_uc010ept.2_Silent_p.H311H|ZNF83_uc010epu.2_Silent_p.H311H|ZNF83_uc010epv.2_Silent_p.H311H|ZNF83_uc010epw.2_Silent_p.H311H|ZNF83_uc010epx.2_Silent_p.H283H|ZNF83_uc010epy.2_Silent_p.H311H|ZNF83_uc010epz.2_Silent_p.H283H	NM_018300	NP_060770	P51522	ZNF83_HUMAN	zinc finger protein 83 isoform a	311	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00841)|GBM - Glioblastoma multiforme(134;0.0244)		TCTCTCCAGTATGAATTCTCC	0.418000													3	60					0	0	6.4e-05	0	0
NLRP13	126204	broad.mit.edu	37	19	56423975	56423975	+	Missense_Mutation	SNP	C	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr19:56423975C>T	uc010ygg.1	-	5	1233	c.1208G>A	c.(1207-1209)AGT>AAT	p.S403N		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	403	NACHT.						ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		CTCAACTTCACTTGAGTCATC	0.443000													25	36					0	0	0.00047179	0	0
HJURP	55355	broad.mit.edu	37	2	234749833	234749833	+	Missense_Mutation	SNP	G	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr2:234749833G>T	uc002vvg.2	-	8	1659	c.1593C>A	c.(1591-1593)CAC>CAA	p.H531Q	HJURP_uc010znd.1_Missense_Mutation_p.H470Q|HJURP_uc010zne.1_Missense_Mutation_p.H439Q	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	531					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		Breast(86;0.00204)|all_lung(227;0.00433)|Renal(207;0.00685)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0719)|Lung SC(224;0.128)		Epithelial(121;2.01e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000186)|Lung(119;0.00521)|LUSC - Lung squamous cell carcinoma(224;0.00829)		GAGTTGCGCTGTGTGTGGGGT	0.488000													27	36					0.000117367	0.000647297	0.000878237	1	0
C21orf99	149992	broad.mit.edu	37	21	14439185	14439185	+	RNA	SNP	C	A	A	rs112098339		TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr21:14439185C>A	uc002yja.3	+	10		c.2703C>A				NR_026916				Homo sapiens C21orf99 protein (C21orf99) mRNA, complete cds.												0						TGACTTTAAACCAAGAAGAAG	0.269000													7	23					0.000274275	0.00146818	0.000274275	1	0
C21orf99	149992	broad.mit.edu	37	21	14439208	14439208	+	RNA	SNP	A	G	G			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr21:14439208A>G	uc002yja.3	+	10		c.2726A>G				NR_026916				Homo sapiens C21orf99 protein (C21orf99) mRNA, complete cds.												0						AAGAGAAGAAATGCCAATATA	0.299000													7	23					0	0	0.000157383	0	0
SENP2	59343	broad.mit.edu	37	3	185339666	185339666	+	Missense_Mutation	SNP	A	G	G			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr3:185339666A>G	uc003fpn.2	+	14	1670	c.1499A>G	c.(1498-1500)AAG>AGG	p.K500R	SENP2_uc011brv.1_Missense_Mutation_p.K490R|SENP2_uc011brw.1_Missense_Mutation_p.K313R	NM_021627	NP_067640	Q9HC62	SENP2_HUMAN	SUMO1/sentrin/SMT3 specific protease 2	500	Protease.				mRNA transport|protein desumoylation|protein transport|proteolysis|regulation of Wnt receptor signaling pathway|transmembrane transport|Wnt receptor signaling pathway	cytoplasm|nuclear membrane|nuclear pore	protein binding|SUMO-specific protease activity				0	all_cancers(143;1.28e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			ATGGGACAAAAGGGCCACAGG	0.388000													4	216					0	0	0.000602214	0	0
MAP1B	4131	broad.mit.edu	37	5	71491677	71491677	+	Missense_Mutation	SNP	C	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr5:71491677C>T	uc003kbw.3	+	5	2736	c.2495C>T	c.(2494-2496)TCT>TTT	p.S832F	MAP1B_uc010iyw.1_Missense_Mutation_p.S849F|MAP1B_uc010iyx.1_Missense_Mutation_p.S706F|MAP1B_uc010iyy.1_Missense_Mutation_p.S706F	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	832						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CTTATGTCATCTCCTGAGGAT	0.522000													6	54					0	0	0.00116845	0	0
PCDHB5	26167	broad.mit.edu	37	5	140516880	140516880	+	Missense_Mutation	SNP	G	A	A			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr5:140516880G>A	uc003liq.2	+	1	2081	c.1864G>A	c.(1864-1866)GAG>AAG	p.E622K		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	622	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCACAATGGCGAGGTGCGCAC	0.706000													27	23					0	0	0.000878237	0	0
GRM3	2913	broad.mit.edu	37	7	86468997	86468997	+	Missense_Mutation	SNP	C	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr7:86468997C>T	uc003uid.2	+	4	3266	c.2167C>T	c.(2167-2169)CGG>TGG	p.R723W	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Missense_Mutation_p.R595W|GRM3_uc010leh.2_Missense_Mutation_p.R315W	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	723	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TGCAGAGAAGCGGGAAACAGT	0.493000													30	10					0	0	0.00106085	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	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				32	10					0	0	0.000953801	0	0
TMEM139	135932	broad.mit.edu	37	7	142983274	142983274	+	Missense_Mutation	SNP	C	A	A			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr7:142983274C>A	uc010lov.2	+	3	363	c.224C>A	c.(223-225)CCA>CAA	p.P75Q	CASP2_uc003wco.2_5'Flank|CASP2_uc003wcp.2_5'Flank|CASP2_uc011kta.1_5'Flank|TMEM139_uc003wck.3_Missense_Mutation_p.P75Q|TMEM139_uc003wcl.2_Missense_Mutation_p.P75Q|TMEM139_uc003wcm.2_Missense_Mutation_p.P75Q|TMEM139_uc003wcn.2_Intron	NM_153345	NP_699176	Q8IV31	TM139_HUMAN	transmembrane protein 139 precursor	75	Cytoplasmic (Potential).					integral to membrane					0	Melanoma(164;0.059)					ACTGAGAGCCCAGGGCCCTCA	0.557000													18	32					2.4624e-09	1.44566e-08	0.00121646	1	0
SNX16	64089	broad.mit.edu	37	8	82714665	82714665	+	Silent	SNP	C	T	T			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr8:82714665C>T	uc011lft.1	-	8	1395	c.888G>A	c.(886-888)GTG>GTA	p.V296V	SNX16_uc003ycn.2_Silent_p.V296V|SNX16_uc003yco.2_Silent_p.V267V	NM_022133	NP_071416	P57768	SNX16_HUMAN	sorting nexin 16 isoform a	296					cell communication|early endosome to late endosome transport|endosome to lysosome transport|protein targeting to lysosome	early endosome membrane|extrinsic to endosome membrane|late endosome membrane|lysosome	identical protein binding|phosphatidylinositol binding			ovary(1)|pancreas(1)	2						CAGAGGACTCCACCTTTAGGA	0.343000													10	14					0	0	0.000442599	0	0
TGIF2LX	90316	broad.mit.edu	37	X	89177411	89177411	+	Silent	SNP	C	A	A			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chrX:89177411C>A	uc004efe.2	+	2	376	c.327C>A	c.(325-327)CTC>CTA	p.L109L		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	109	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GACGCATTCTCCCGGATATGC	0.502000													35	62					1.32136e-16	8.58881e-16	0.00195071	1	0
GPR112	139378	broad.mit.edu	37	X	135427555	135427555	+	Missense_Mutation	SNP	T	A	A			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chrX:135427555T>A	uc004ezu.1	+	6	1981	c.1690T>A	c.(1690-1692)TCA>ACA	p.S564T	GPR112_uc010nsb.1_Missense_Mutation_p.S359T|GPR112_uc010nsc.1_Missense_Mutation_p.S331T	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	564	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					AACATCCTTTTCATTTACTGG	0.418000													12	46					0	0	0.00136819	0	0
GABRE	2564	broad.mit.edu	37	X	151128359	151128359	+	Missense_Mutation	SNP	C	A	A			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chrX:151128359C>A	uc004ffi.2	-	6	790	c.736G>T	c.(736-738)GAT>TAT	p.D246Y	GABRE_uc011myd.1_RNA|GABRE_uc011mye.1_RNA|MIR224_hsa-mir-224|MI0000301_5'Flank|MIR452_hsa-mir-452|MI0001733_5'Flank	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	246	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CCTGTAAAATCAAACTGGAAG	0.443000													31	64					2.80507e-11	1.70174e-10	0.000409698	1	0
MTSS1L	92154	broad.mit.edu	37	16	70697689	70697689	+	Frame_Shift_Del	DEL	G	-	-			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr16:70697689delG	uc002ezj.2	-	15	2395	c.2135delC	c.(2134-2136)CCAfs	p.P712fs		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	712					filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						GGTGGCGGCTGGGGGTGGGGT	0.746													2	4	---	---	---	---					
DLG4	1742	broad.mit.edu	37	17	7096904	7096917	+	Splice_Site	DEL	CTGCAGAGAGAGCC	-	-			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr17:7096904_7096917delCTGCAGAGAGAGCC	uc002get.3	-	18	2922	c.1721_splice	c.e18-1	p.V574_splice	DLG4_uc010vtm.1_Splice_Site|DLG4_uc010vtn.1_Splice_Site_p.V471_splice|DLG4_uc010cly.2_Splice_Site_p.V528_splice|DLG4_uc010vto.1_Splice_Site_p.V571_splice	NM_001365	NP_001356	P78352	DLG4_HUMAN	post-synaptic density protein 95 isoform 1						axon guidance|learning|protein complex assembly|protein localization to synapse|signal transduction|synaptic transmission	cell junction|cortical cytoskeleton|endocytic vesicle membrane|neuron spine|postsynaptic density|postsynaptic membrane|synaptosome	protein binding|protein C-terminus binding			ovary(1)|breast(1)	2						GCATAGTGCACTGCAGAGAGAGCCTGGCTTAGGC	0.612													5	11	---	---	---	---					
C5orf38	153571	broad.mit.edu	37	5	2752737	2752742	+	In_Frame_Del	DEL	TTTGTG	-	-			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr5:2752737_2752742delTTTGTG	uc003jdc.2	+	2	319_324	c.202_207delTTTGTG	c.(202-207)TTTGTGdel	p.FV68del	C5orf38_uc011cmg.1_In_Frame_Del_p.FV68del|C5orf38_uc011cmh.1_Intron|C5orf38_uc011cmi.1_Intron|C5orf38_uc011cmj.1_Intron	NM_178569	NP_848664	Q86SI9	CEI_HUMAN	hypothetical protein LOC153571 precursor	68_69						extracellular region					0				GBM - Glioblastoma multiforme(108;0.205)		CTCTTTCAGATTTGTGTTGTCAAAAC	0.490													24	87	---	---	---	---					
C7orf65	401335	broad.mit.edu	37	7	47698645	47698646	+	Frame_Shift_Ins	INS	-	A	A			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr7:47698645_47698646insA	uc010kyp.1	+	3	310_311	c.275_276insA	c.(274-276)GGAfs	p.G92fs		NM_001123065	NP_001116537	Q6ZTY9	CG065_HUMAN	hypothetical protein LOC401335	92											0						AATTCATGTGGAATCACCCTAG	0.515													34	58	---	---	---	---					
ARFGEF1	10565	broad.mit.edu	37	8	68152466	68152468	+	In_Frame_Del	DEL	AGT	-	-			TCGA-FS-A1YX-06A-11D-A197-08	TCGA-FS-A1YX-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	3b8e4b31-301c-4f19-8b9f-3995bbddb4fa	ab4c890d-d4cd-4fe8-a7d5-244d7c70e448	g.chr8:68152466_68152468delAGT	uc003xxo.1	-	20	3298_3300	c.2908_2910delACT	c.(2908-2910)ACTdel	p.T970del	ARFGEF1_uc003xxl.1_In_Frame_Del_p.T424del|ARFGEF1_uc003xxn.1_Translation_Start_Site	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	970					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			AGGCTACTTCAGTATCATCACAA	0.355													25	78	---	---	---	---					
