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
KRTAP4-6	81871	broad.mit.edu	37	17	39296282	39296282	+	Missense_Mutation	SNP	G	G	T			TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr17:39296282G>T	ENST00000345847.4	-	1	457	c.458C>A	c.(457-459)tCt>tAt	p.S153Y		NM_030976.1	NP_112238.1	Q9BYQ5	KRA46_HUMAN	keratin associated protein 4-6	149	29 X 5 AA repeats of C-C-[IRQVEL]-[SPTR]- [STVQRCP].					keratin filament				endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|lung(1)|prostate(1)|urinary_tract(1)	9						ttcacagcaagaggggcggca	0.662000													3	31					6.4e-05	6.85714e-05	1	1	0
SDPR	8436	broad.mit.edu	37	2	192701209	192701209	+	Missense_Mutation	SNP	C	C	T			TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr2:192701209C>T	ENST00000304141.4	-	2	1047	c.718G>A	c.(718-720)Gat>Aat	p.D240N		NM_004657.5	NP_004648.1	O95810	SDPR_HUMAN	serum deprivation response	240						caveola|cytosol	phosphatidylserine binding|protein binding			NS(1)|central_nervous_system(1)|cervix(1)|large_intestine(6)|lung(9)|ovary(1)|pancreas(1)|urinary_tract(3)	23			OV - Ovarian serous cystadenocarcinoma(117;0.0647)		Phosphatidylserine(DB00144)	TTGAGGCTATCCACTTTCTTC	0.453000													7	191					0	0	1	0	0
ATF4P4	0	broad.mit.edu	37	11	113659993	113659993	+	RNA	SNP	A	A	C	rs906846	by1000genomes	TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr11:113659993A>C	ENST00000393544.2	+	0	41																											GGCAGCATGTAGGTTGCAGGG	0.657000													3	26					0	0	1	0	0
POM121L9P	0	broad.mit.edu	37	22	24659512	24659512	+	RNA	SNP	A	A	G			TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr22:24659512A>G	ENST00000414583.2	+	0	3037					NR_003714.1																						TGCCTGGGCCATGGAGCACTC	0.473000													4	20					0	0	1	0	0
DNAH10	196385	broad.mit.edu	37	12	124332536	124332536	+	Missense_Mutation	SNP	C	C	T			TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr12:124332536C>T	ENST00000409039.3	+	32	5514	c.5489C>T	c.(5488-5490)cCc>cTc	p.P1830L		NM_207437.3	NP_997320.2	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1830	AAA 1 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(14)|ovary(4)|prostate(2)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	52	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GGTGGGGCCCCCGCCGGCCCA	0.532000													4	96					0	0	1	0	0
ZNF777	27153	broad.mit.edu	37	7	149152881	149152881	+	Missense_Mutation	SNP	C	C	A			TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr7:149152881C>A	ENST00000247930.4	-	2	556	c.233G>T	c.(232-234)gGa>gTa	p.G78V		NM_015694.2	NP_056509.2	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	78					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(5)|lung(17)|ovary(1)|skin(2)|urinary_tract(1)	26	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GAGTGAGGGTCCCTTCTGGAG	0.602000													43	74					7.05121e-23	8.13601e-23	1	1	0
MT1JP	0	broad.mit.edu	37	16	56670827	56670827	+	RNA	SNP	C	C	T	rs11076159	by1000genomes	TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr16:56670827C>T	ENST00000564564.1	+	0	806																											TGCAAAGGGACGTCGGAGAAG	0.537000													6	72					0	0	1	0	0
MVD	4597	broad.mit.edu	37	16	88719737	88719737	+	Missense_Mutation	SNP	C	C	T	rs113497258	byFrequency	TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr16:88719737C>T	ENST00000301012.3	-	9	1122	c.1093G>A	c.(1093-1095)Ggt>Agt	p.G365S		NM_002461.1	NP_002452.1	P53602	MVD1_HUMAN	mevalonate (diphospho) decarboxylase	365					cholesterol biosynthetic process|positive regulation of cell proliferation	cytosol	ATP binding|diphosphomevalonate decarboxylase activity|Hsp70 protein binding|kinase activity|protein homodimerization activity			endometrium(3)|large_intestine(1)|lung(7)|ovary(1)	12				BRCA - Breast invasive adenocarcinoma(80;0.0478)		TTGACCCCACCGGGGGTCGGC	0.672000													3	21					0	0	1	0	0
TAPBP	6892	broad.mit.edu	37	6	33281527	33281527	+	Missense_Mutation	SNP	G	G	A			TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr6:33281527G>A	ENST00000434618.2	-	2	497	c.152C>T	c.(151-153)cCg>cTg	p.P51L	TAPBP_ENST00000489157.1_Missense_Mutation_p.P51L|TAPBP_ENST00000426633.2_Missense_Mutation_p.P51L|TAPBP_ENST00000456592.2_Missense_Mutation_p.P51L|TAPBP_ENST00000475304.1_Missense_Mutation_p.P51L	NM_003190.4|NM_172209.2	NP_003181.3|NP_757346.2	O15533	TPSN_HUMAN	TAP binding protein (tapasin)	51					antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			endometrium(2)|large_intestine(5)|lung(8)|ovary(3)	18						CGGTTCCCCCGGTCCCTGGCG	0.672000													7	42					0	0	1	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	A	T	rs121913377		TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	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				20	43					0	0	1	0	0
CHD4	1108	broad.mit.edu	37	12	6707418	6707418	+	Silent	SNP	G	G	A			TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr12:6707418G>A	ENST00000309577.6	-	11	1819	c.1656C>T	c.(1654-1656)taC>taT	p.Y552Y	CHD4_ENST00000544484.1_Silent_p.Y549Y|CHD4_ENST00000357008.2_Silent_p.Y552Y|CHD4_ENST00000544040.1_Silent_p.Y545Y			Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	552	Chromo 1.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						AGCAGTGCCAGTAAGACATGC	0.542000													6	127					0	0	1	0	0
AC074391.1	0	broad.mit.edu	37	2	65738863	65738863	+	RNA	DEL	G	G	-			TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr2:65738863delG	ENST00000377977.3	+	0	862																											TTTTTTTTTTGTCCAGGAGGC	0.303													3	4	---	---	---	---					
PCDHB17	0	broad.mit.edu	37	5	140535781	140535782	+	Frame_Shift_Ins	INS	-	-	C			TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr5:140535781_140535782insC	ENST00000539533.1	+	1	205_206	c.205_206insC	c.(205-207)caafs	p.Q69fs																								CCGGATTCTTTCCAAAGGGAAC	0.510													2	4	---	---	---	---					
MMP12	4321	broad.mit.edu	37	11	102738795	102738796	+	RNA	INS	-	-	T	rs33924686	by1000genomes	TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr11:102738795_102738796insT	ENST00000532855.1	-	0	725_726							P39900	MMP12_HUMAN	matrix metallopeptidase 12 (macrophage elastase)						positive regulation of epithelial cell proliferation involved in wound healing|proteolysis|wound healing, spreading of epidermal cells	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding	p.N211fs*20(2)		autonomic_ganglia(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(4)|lung(9)|prostate(5)|skin(1)|upper_aerodigestive_tract(1)	26		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)	AGGAACAAGTGGTGCCTAAGAA	0.416													2	4	---	---	---	---					
CACNA2D4	93589	broad.mit.edu	37	12	1993484	1993484	+	Frame_Shift_Del	DEL	G	G	-			TCGA-EL-A4KH-01A-11D-A257-08	TCGA-EL-A4KH-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f751da92-34f7-4f6b-93c8-1946d3e1e068	11398e17-c47c-4c24-852f-e642cf930718	g.chr12:1993484delG	ENST00000382722.5	-	12	1638	c.1276delC	c.(1276-1278)gafs	p.R426fs	CACNA2D4_ENST00000585732.1_Intron|CACNA2D4_ENST00000587995.1_Frame_Shift_Del_p.R426fs|CACNA2D4_ENST00000588077.1_Frame_Shift_Del_p.R362fs|CACNA2D4_ENST00000585708.1_Frame_Shift_Del_p.R362fs|CACNA2D4_ENST00000586184.1_Frame_Shift_Del_p.R426fs	NM_172364.4	NP_758952.4	Q7Z3S7	CA2D4_HUMAN	calcium channel, voltage-dependent, alpha 2/delta subunit 4	426	VWFA.					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			endometrium(3)|kidney(2)|large_intestine(1)|liver(1)|lung(27)|ovary(2)|prostate(2)|upper_aerodigestive_tract(1)	39	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		GTGAAAACTCGGACCTAACCC	0.483													5	7	---	---	---	---					
