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
MSL3P1	151507	broad.mit.edu	37	2	234774852	234774852	+	Missense_Mutation	SNP	G	G	C			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr2:234774852G>C	uc010znf.2	-	1	1228	c.990C>G	c.(988-990)gaC>gaG	p.D330E						Homo sapiens male-specific lethal 3 homolog (Drosophila) pseudogene 1 (MSL3P1), non-coding RNA.																		CTGGGAAGAAGTCATCGTGGT	0.433000													19	32					0	0	1	0	0
CCDC67	159989	broad.mit.edu	37	11	93088558	93088558	+	Missense_Mutation	SNP	G	G	C			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr11:93088558G>C	uc001pdq.3	+	2	151	c.51G>C	c.(49-51)gaG>gaC	p.E17D	CCDC67_uc001pdo.1_Missense_Mutation_p.E17D|CCDC67_uc001pdp.3_Missense_Mutation_p.E17D	NM_181645	NP_857596	Q05D60	CCD67_HUMAN	Homo sapiens coiled-coil domain containing 67 (CCDC67), mRNA.	17										endometrium(3)|kidney(1)|large_intestine(1)|lung(10)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				GTGAGGCTGAGCTTCAGGAAT	0.378000													8	52					0	0	1	0	0
C9orf9	11092	broad.mit.edu	37	9	135763731	135763731	+	Silent	SNP	C	C	T			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr9:135763731C>T	uc004cbx.1	+	3	513	c.402C>T	c.(400-402)taC>taT	p.Y134Y	C9orf9_uc004cby.1_Silent_p.Y134Y|C9orf9_uc004cbz.1_Silent_p.Y134Y	NM_018956	NP_061829	Q96E40	CI009_HUMAN	Homo sapiens chromosome 9 open reading frame 9 (C9orf9), mRNA.	134								p.?(1)		cervix(1)|large_intestine(1)|lung(1)|prostate(1)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|GBM - Glioblastoma multiforme(294;4.84e-07)|Epithelial(140;1.28e-06)		GGAACCACTACGGCGGCGTGG	0.607000													18	48					0	0	1	0	0
PRR12	57479	broad.mit.edu	37	19	50097869	50097869	+	Missense_Mutation	SNP	A	A	G			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr19:50097869A>G	uc002poo.4	+	2	358	c.358A>G	c.(358-360)Aca>Gca	p.T120A		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	Homo sapiens proline rich 12 (PRR12), mRNA.	534	Pro-rich.						DNA binding			NS(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(2)|pancreas(1)|prostate(2)	11		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		TTCCTGGCAAACAGGTAAGCC	0.667000													16	36					0	0	1	0	0
EIF3E	3646	broad.mit.edu	37	8	109215251	109215251	+	Missense_Mutation	SNP	C	C	T			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr8:109215251C>T	uc003ymu.3	-	11	1288	c.1260G>A	c.(1258-1260)atG>atA	p.M420I	EIF3E_uc003ymt.3_Missense_Mutation_p.M371I	NM_001568	NP_001559	P60228	EIF3E_HUMAN	Homo sapiens eukaryotic translation initiation factor 3, subunit E (EIF3E), mRNA.	420	Sufficient for interaction with MCM7.				negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	PML body|cytosol|eukaryotic translation initiation factor 3 complex	protein N-terminus binding		EIF3E/RSPO2(6)	NS(1)|biliary_tract(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(2)|lung(10)|ovary(3)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	30			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)			TCTCAATATTCATGGCCAACA	0.398000													13	20					0	0	1	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	A	T	rs121913377		TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr7:140453136A>T	uc003vwc.4	-	14	1860	c.1799T>A	c.(1798-1800)gTg>gAg	p.V600E		NM_004333	NP_004324	P15056	BRAF_HUMAN	Homo sapiens v-raf murine sarcoma viral oncogene homolog B1 (BRAF), mRNA.	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(41204)|p.V600K(615)|p.V600?(377)|p.V600R(99)|p.V600D(40)|p.V600_K601>E(30)|p.V600L(28)|p.V600A(24)|p.V600G(22)|p.V600M(22)|p.A598_T599insV(7)|p.T599_V600insT(7)|p.T599I(5)|p.V600Q(4)|p.T599_R603>I(4)|p.T599_V600insTT(3)|p.T599_V600insDFGLAT(2)|p.T599_V600>IAL(2)|p.V600_S605>EK(2)|p.T599T(2)|p.V600_S605>DV(2)|p.V600_S605>D(2)|p.V600_W604del(1)|p.V600V(1)|p.T599_V600insV(1)|p.V600>DLAT(1)|p.D594_T599del(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				6	21					0	0	1	0	0
GPR116	221395	broad.mit.edu	37	6	46826302	46826302	+	Missense_Mutation	SNP	T	T	C			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr6:46826302T>C	uc003oyo.3	-	16	3627	c.3338A>G	c.(3337-3339)tAt>tGt	p.Y1113C	GPR116_uc011dwj.1_Missense_Mutation_p.Y668C|GPR116_uc011dwk.1_Missense_Mutation_p.Y542C|GPR116_uc003oyp.3_Missense_Mutation_p.Y971C|GPR116_uc003oyq.3_Missense_Mutation_p.Y1113C|GPR116_uc010jzi.1_Missense_Mutation_p.Y785C	NM_001098518	NP_056049	Q8IZF2	GP116_HUMAN	Homo sapiens G protein-coupled receptor 116 (GPR116), transcript variant 2, mRNA.	1113					neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			breast(2)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(14)|lung(21)|ovary(1)|pancreas(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	59			Lung(136;0.192)			AACCAGGCGATAGAACAGCAT	0.517000													3	35					0	0	1	0	0
AGPAT2	10555	broad.mit.edu	37	9	139581702	139581702	+	Silent	SNP	C	C	A			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr9:139581702C>A	uc004cii.1	-	0	210	c.108G>T	c.(106-108)ctG>ctT	p.L36L	AGPAT2_uc004cij.1_Silent_p.L36L	NM_006412	NP_006403	O15120	PLCB_HUMAN	Homo sapiens 1-acylglycerol-3-phosphate O-acyltransferase 2 (lysophosphatidic acid acyltransferase, beta) (AGPAT2), transcript variant 1, mRNA.	36					phosphatidic acid biosynthetic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity	p.L36Q(1)		endometrium(1)|large_intestine(1)|lung(2)|prostate(2)	6	all_cancers(76;0.0893)|all_epithelial(76;0.231)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.87e-06)|Epithelial(140;0.000123)		CCGTGAAGCACAGCGCGCAGT	0.726000													7	35					0	0	1	0	0
CDH6	1004	broad.mit.edu	37	5	31305327	31305327	+	Missense_Mutation	SNP	C	C	A			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr5:31305327C>A	uc003jhe.2	+	6	1406	c.1046C>A	c.(1045-1047)gCc>gAc	p.A349D	CDH6_uc003jhd.2_Missense_Mutation_p.A349D	NM_004932	NP_004923	P55285	CADH6_HUMAN	Homo sapiens cadherin 6, type 2, K-cadherin (fetal kidney) (CDH6), mRNA.	349	Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			NS(3)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(42)|ovary(4)|prostate(6)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(1)	77						AAAGTGGAAGCCTCCAATCCT	0.463000													18	27					0	0	1	0	0
PPL	5493	broad.mit.edu	37	16	4935111	4935111	+	Missense_Mutation	SNP	G	G	A			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr16:4935111G>A	uc002cyd.1	-	21	3635	c.3545C>T	c.(3544-3546)cCc>cTc	p.P1182L		NM_002705	NP_002696	O60437	PEPL_HUMAN	Homo sapiens periplakin (PPL), mRNA.	1182					keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			breast(6)|central_nervous_system(1)|endometrium(11)|kidney(5)|large_intestine(12)|lung(12)|ovary(4)|prostate(5)|skin(3)|stomach(1)|urinary_tract(2)	62						TTCCGCCTTGGGGTCTGGCCG	0.622000													31	64					0	0	1	0	0
ADAMTS16	170690	broad.mit.edu	37	5	5237086	5237086	+	Silent	SNP	G	G	A			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr5:5237086G>A	uc003jdl.3	+	13	2166	c.2028G>A	c.(2026-2028)caG>caA	p.Q676Q	ADAMTS16_uc003jdk.1_Silent_p.Q676Q|ADAMTS16_uc010itk.1_Intron	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	Homo sapiens ADAM metallopeptidase with thrombospondin type 1 motif, 16 (ADAMTS16), mRNA.	676	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding	p.Q676E(1)		breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(72)|ovary(4)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	107						TTTAAGATCAGGACTTATGCA	0.353000													7	31					0	0	1	0	0
KCNC3	3748	broad.mit.edu	37	19	50827018	50827018	+	Missense_Mutation	SNP	G	G	C			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr19:50827018G>C	uc002pru.1	-	1	1487	c.1192C>G	c.(1192-1194)Ctc>Gtc	p.L398V	KCNC3_uc002prt.1_Missense_Mutation_p.L34V	NM_004977	NP_004968	Q14003	KCNC3_HUMAN	Homo sapiens potassium voltage-gated channel, Shaw-related subfamily, member 3 (KCNC3), mRNA.	398					cell death	voltage-gated potassium channel complex	voltage-gated potassium channel activity			endometrium(2)|large_intestine(4)|lung(5)|pancreas(1)|skin(1)	13		all_neural(266;0.057)|Ovarian(192;0.208)		OV - Ovarian serous cystadenocarcinoma(262;0.00283)|GBM - Glioblastoma multiforme(134;0.0181)		AGGCCCGAGAGGCCCACCTCG	0.597000													5	46					0	0	1	0	0
ZC3H15	55854	broad.mit.edu	37	2	187351112	187351113	+	Frame_Shift_Ins	INS	-	-	C			TCGA-FY-A4B3-01A-11D-A23U-08	TCGA-FY-A4B3-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fbe5a458-6112-46da-bc88-5bf6467f73bb	f27473dd-f2e2-4039-a2f4-e60e8f59a93e	g.chr2:187351112_187351113insC	uc002upo.3	+	0	228_229	c.3_4insC	c.(1-6)atgcccfs	p.M1fs		NM_018471	NP_060941	Q8WU90	ZC3HF_HUMAN	Homo sapiens zinc finger CCCH-type containing 15 (ZC3H15), mRNA.	1						cytoplasm|nucleolus|plasma membrane	nucleic acid binding|zinc ion binding			breast(3)|endometrium(1)|kidney(1)|large_intestine(4)|lung(5)|skin(1)	15			OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Epithelial(96;0.0922)|all cancers(119;0.233)			TCTCCGCAATGCCCCCCAAGAA	0.609													2	4	---	---	---	---