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
FLG2	388698	broad.mit.edu	37	1	152324257	152324257	+	Missense_Mutation	SNP	G	C	C	rs144200854	by1000genomes	TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr1:152324257G>C	uc001ezw.3	-	3	6078	c.6005C>G	c.(6004-6006)GCA>GGA	p.A2002G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	2002	Filaggrin 9.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGTGGTATCTGCTGTTTGTCC	0.517													5	375	---	---	---	---	0	0	0.248553	0	0
RPL13AP20	387841	broad.mit.edu	37	12	13028751	13028751	+	Missense_Mutation	SNP	G	C	C			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr12:13028751G>C	uc010sho.1	+	1	341	c.319G>C	c.(319-321)GGC>CGC	p.G107R		NR_003932				SubName: Full=Ribosomal protein L13a variant; Flags: Fragment;												0						GGTGTTTGACGGCATCCCACC	0.612													4	15	---	---	---	---	0	0	0.150653	0	0
KSR2	283455	broad.mit.edu	37	12	117962864	117962864	+	Missense_Mutation	SNP	A	T	T			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr12:117962864A>T	uc001two.2	-	14	1980	c.1925T>A	c.(1924-1926)CTC>CAC	p.L642H		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	671	Protein kinase.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTTTCCAATGAGCTCGCCGAT	0.622													5	82	---	---	---	---	0	0	0.217242	0	0
CDKL1	8814	broad.mit.edu	37	14	50877292	50877292	+	Silent	SNP	G	A	A			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr14:50877292G>A	uc010anu.1	-	2	111	c.111C>T	c.(109-111)TAC>TAT	p.Y37Y		NM_004196	NP_004187	Q00532	CDKL1_HUMAN	cyclin-dependent kinase-like 1	Error:Variant_position_missing_in_Q00532_after_alignment						cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(1)|stomach(1)	2	all_epithelial(31;0.000746)|Breast(41;0.0102)					agtctgcaccgtagctgctag	0													4	117	---	---	---	---	0	0	0.150653	0	0
ADAM6	8755	broad.mit.edu	37	14	106110177	106110177	+	RNA	SNP	G	A	A			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr14:106110177G>A	uc010tyt.1	-	3642		c.61074C>T			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron|uc001yrz.1_RNA					Parts of antibodies, mostly variable regions.												0						CGGGGTCTTCGTGGCTCACGT	0.602													15	190	---	---	---	---	0	0	0.520397	0	0
EEF2K	29904	broad.mit.edu	37	16	22268620	22268620	+	Missense_Mutation	SNP	T	A	A			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr16:22268620T>A	uc002dki.2	+	8	1300	c.815T>A	c.(814-816)GTG>GAG	p.V272E	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	272	Alpha-type protein kinase.				insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		CAGCTGATAGTGGTGGACATC	0.557													6	157	---	---	---	---	0	0	0.248553	0	0
CDYL2	124359	broad.mit.edu	37	16	80718510	80718510	+	Silent	SNP	A	G	G			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr16:80718510A>G	uc002ffs.2	-	2	646	c.541T>C	c.(541-543)TTG>CTG	p.L181L		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	181						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						TGATCATTCAAATCCAAGCCA	0.512													3	113	---	---	---	---	0	0	0.150653	0	0
CCDC42	146849	broad.mit.edu	37	17	8647917	8647917	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr17:8647917C>T	uc002gln.2	-	1	238	c.11G>A	c.(10-12)GGC>GAC	p.G4D	CCDC42_uc002glo.2_Missense_Mutation_p.G4D	NM_144681	NP_653282	Q96M95	CCD42_HUMAN	coiled-coil domain containing 42 isoform 1	4										ovary(1)	1						TTCCATGATGCCCAGACTCAT	0.612													34	46	---	---	---	---	0	0	0.788014	0	0
UBB	7314	broad.mit.edu	37	17	16285491	16285491	+	Silent	SNP	C	T	T	rs16962973		TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr17:16285491C>T	uc002gpx.2	+	2	408	c.270C>T	c.(268-270)ACC>ACT	p.T90T	UBB_uc010vwe.1_Intron	NM_018955	NP_061828	P0CG47	UBB_HUMAN	ubiquitin B precursor	90	Ubiquitin-like 2.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		AGACCATCACCCTGGAAGTGG	0.552													3	84	---	---	---	---	0	0	0.150653	0	0
GAA	2548	broad.mit.edu	37	17	78079688	78079688	+	Silent	SNP	C	T	T	rs149814041		TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr17:78079688C>T	uc002jxo.2	+	4	869	c.687C>T	c.(685-687)CGC>CGT	p.R229R	GAA_uc002jxp.2_Silent_p.R229R|GAA_uc002jxq.2_Silent_p.R229R	NM_001079803	NP_001073271	P10253	LYAG_HUMAN	acid alpha-glucosidase preproprotein	229					cardiac muscle contraction|diaphragm contraction|glycogen catabolic process|lysosome organization|tongue morphogenesis|vacuolar sequestering|ventricular cardiac muscle tissue morphogenesis	lysosomal membrane	carbohydrate binding|maltose alpha-glucosidase activity			ovary(1)	1	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)		Acarbose(DB00284)	TGGACGGCCGCGTGCTGTGAG	0.657													9	76	---	---	---	---	0	0	0.411799	0	0
DCC	1630	broad.mit.edu	37	18	50866169	50866169	+	Missense_Mutation	SNP	C	A	A			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr18:50866169C>A	uc002lfe.1	+	15	2838	c.2251C>A	c.(2251-2253)CCA>ACA	p.P751T	DCC_uc010xdr.1_Missense_Mutation_p.P599T|DCC_uc010dpf.1_Missense_Mutation_p.P406T	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	751	Extracellular (Potential).|Fibronectin type-III 4.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TCCCTTGAACCCAAACATCGT	0.473													7	96	---	---	---	---	5.18039e-06	5.61209e-06	0.278610	1	0
RTTN	25914	broad.mit.edu	37	18	67872549	67872549	+	Missense_Mutation	SNP	G	C	C			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr18:67872549G>C	uc002lkp.2	-	2	102	c.34C>G	c.(34-36)CAT>GAT	p.H12D	RTTN_uc010xfb.1_5'UTR|RTTN_uc002lkq.1_Missense_Mutation_p.H12D	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	12							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				GCCAGCTGATGACCTGTCAAC	0.483													4	172	---	---	---	---	0	0	0.184627	0	0
ZNF208	7757	broad.mit.edu	37	19	22156530	22156530	+	Missense_Mutation	SNP	A	G	G			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr19:22156530A>G	uc002nqp.2	-	4	1455	c.1306T>C	c.(1306-1308)TGG>CGG	p.W436R	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTTGAGGACCAGTTGAAAGCT	0.388													3	73	---	---	---	---	0	0	0.115264	0	0
VIL1	7429	broad.mit.edu	37	2	219299353	219299353	+	Silent	SNP	G	A	A			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr2:219299353G>A	uc002via.2	+	14	1670	c.1605G>A	c.(1603-1605)GCG>GCA	p.A535A	VIL1_uc010zke.1_Silent_p.A224A|VIL1_uc002vib.2_Silent_p.A535A	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	535	Gelsolin-like 5.|Core.				actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGGTCCCAGCGCGGGCCAATT	0.567													4	118	---	---	---	---	0	0	0.150653	0	0
FAM182B	728882	broad.mit.edu	37	20	25848629	25848629	+	RNA	SNP	C	T	T			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr20:25848629C>T	uc002wvd.1	-	1		c.158G>A								Homo sapiens cDNA FLJ30282 fis, clone BRACE2002803.												0						gctgggatgccgtgctgcttc	0													3	4	---	---	---	---	0	0	0.184627	0	0
PGM2	55276	broad.mit.edu	37	4	37836265	37836265	+	Missense_Mutation	SNP	A	G	G			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr4:37836265A>G	uc011byb.1	+	3	348	c.275A>G	c.(274-276)CAA>CGA	p.Q92R	PGM2_uc011bya.1_5'UTR|PGM2_uc011byc.1_Intron	NM_018290	NP_060760	Q96G03	PGM2_HUMAN	phosphoglucomutase 2	92					glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity|phosphopentomutase activity			ovary(1)	1						CTGGAAAAACAATTCAGTGAC	0.343													88	112	---	---	---	---	0	0	0.870114	0	0
NOP16	51491	broad.mit.edu	37	5	175813862	175813862	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr5:175813862G>A	uc011dfl.1	-	3	265	c.265C>T	c.(265-267)CGG>TGG	p.R89W	NOP16_uc003med.2_Missense_Mutation_p.R89W|NOP16_uc003mee.2_Missense_Mutation_p.R89W|NOP16_uc011dfm.1_Missense_Mutation_p.R89W|HIGD2A_uc003meg.2_5'Flank	NM_016391	NP_057475	Q9Y3C1	NOP16_HUMAN	NOP16 nucleolar protein homolog	89						nucleolus				ovary(1)|central_nervous_system(1)	2						TAGGGCTTCCGTACAAGCTCT	0.433													4	149	---	---	---	---	0	0	0.248553	0	0
TMEM63B	55362	broad.mit.edu	37	6	44119647	44119647	+	Missense_Mutation	SNP	G	T	T			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr6:44119647G>T	uc003owr.2	+	19	1802	c.1738G>T	c.(1738-1740)GGC>TGC	p.G580C	TMEM63B_uc003ows.2_Missense_Mutation_p.G483C|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	580	Helical; (Potential).					integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			AGCCTTTATCGGCAACGCCAT	0.642											OREG0017465	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	55	58	---	---	---	---	6.30371e-39	7.12593e-39	0.870114	1	0
ZCWPW1	55063	broad.mit.edu	37	7	100014704	100014704	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr7:100014704G>A	uc003uut.2	-	6	712	c.464C>T	c.(463-465)ACT>ATT	p.T155I	ZCWPW1_uc011kjq.1_Missense_Mutation_p.T34I|ZCWPW1_uc003uur.2_Missense_Mutation_p.T34I|ZCWPW1_uc003uus.2_Missense_Mutation_p.T34I|ZCWPW1_uc011kjr.1_Missense_Mutation_p.T154I|ZCWPW1_uc003uuu.1_Missense_Mutation_p.T154I|ZCWPW1_uc011kjs.1_Missense_Mutation_p.T34I	NM_017984	NP_060454	Q9H0M4	ZCPW1_HUMAN	zinc finger, CW type with PWWP domain 1	155							zinc ion binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AGCATTATCAGTATCAGTAGC	0.368													12	266	---	---	---	---	0	0	0.520397	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	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	0.368	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				30	44	---	---	---	---	0	0	0.804634	0	0
Unknown	0	broad.mit.edu	37	1	4204653	4204654	+	IGR	INS	-	CAC	CAC			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr1:4204653_4204654insCAC								LOC100133612 (370776 upstream) : LOC284661 (267457 downstream)																							caccactaccacaccaccacca	0.035													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	1	236063928	236063930	+	IGR	DEL	GAG	-	-	rs4595359		TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr1:236063928_236063930delGAG								LYST (16988 upstream) : NID1 (75211 downstream)																							gtctgaggaagaggaggaggagg	0.000													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	91621153	91621155	+	IGR	DEL	CTC	-	-			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr10:91621153_91621155delCTC								KIF20B (86453 upstream) : HTR7 (879423 downstream)																							tcctcttccactcctcctcctcc	0.000													2	4	---	---	---	---					
GIT2	9815	broad.mit.edu	37	12	110433982	110433982	+	Frame_Shift_Del	DEL	C	-	-			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr12:110433982delC	uc001tps.2	-	1	213	c.48delG	c.(46-48)GGGfs	p.G16fs	GIT2_uc001tpq.2_Frame_Shift_Del_p.G16fs|GIT2_uc001tpv.2_Frame_Shift_Del_p.G16fs|GIT2_uc001tpu.2_Frame_Shift_Del_p.G16fs|GIT2_uc001tpt.2_Frame_Shift_Del_p.G16fs|GIT2_uc010sxu.1_5'UTR|GIT2_uc001tpw.2_Frame_Shift_Del_p.G16fs|GIT2_uc010sxv.1_Frame_Shift_Del_p.G16fs	NM_057169	NP_476510	Q14161	GIT2_HUMAN	G protein-coupled receptor kinase interacting	16	Arf-GAP.|C4-type.				regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	nucleoplasm	ARF GTPase activator activity|protein binding|zinc ion binding			central_nervous_system(1)	1						ACTCACCCGGCCCGCTGCAGT	0.731													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	13	51568355	51568355	+	IGR	DEL	T	-	-			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr13:51568355delT								RNASEH2B (23761 upstream) : GUCY1B2 (294 downstream)																							ctcccccccctccccctcccc	0.328													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	15	20508662	20508677	+	IGR	DEL	CCCTGCCCTGGCTGTT	-	-	rs111259812		TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr15:20508662_20508677delCCCTGCCCTGGCTGTT								None (None upstream) : GOLGA6L6 (228417 downstream)																							ATGgccctggccctgccctggctgttccctggccct	0.269													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	15	30242245	30242246	+	IGR	INS	-	C	C			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr15:30242245_30242246insC								TJP1 (127539 upstream) : FAM7A3 (153689 downstream)																							caccaccacctccaccaccacc	0.000													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	16	86155075	86155077	+	IGR	DEL	CCT	-	-			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr16:86155075_86155077delCCT								IRF8 (198866 upstream) : LOC732275 (210379 downstream)																							tctcctcctccctcctcctcctc	0.039													2	4	---	---	---	---					
CHD3	1107	broad.mit.edu	37	17	7788146	7788148	+	In_Frame_Del	DEL	GAG	-	-			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr17:7788146_7788148delGAG	uc002gjd.2	+	1	24_26	c.22_24delGAG	c.(22-24)GAGdel	p.E14del		NM_001005271	NP_001005271	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				TCTGAGggacgaggaggaggagg	0.094													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	18	65042571	65042572	+	IGR	INS	-	A	A	rs150098817		TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr18:65042571_65042572insA								CDH19 (771355 upstream) : DSEL (131247 downstream)																							ATATTACCAGTAAAAAAAAAAA	0.337													4	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	44755961	44755961	+	IGR	DEL	C	-	-			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr21:44755961delC								CRYAA (163048 upstream) : SIK1 (78437 downstream)																							accatcaccaccatcaccacc	0.000													4	8	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	47510805	47510807	+	IGR	DEL	GTG	-	-			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr21:47510805_47510807delGTG								COL6A1 (85842 upstream) : COL6A2 (7226 downstream)																							gggtgatggtgtggtggtggtga	0.000													5	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	47555741	47555741	+	IGR	DEL	A	-	-			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr21:47555741delA								COL6A2 (2978 upstream) : FTCD (436 downstream)																							tcccctccccagcgttccctc	0.199													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	52650958	52650959	+	IGR	INS	-	A	A	rs142546152	by1000genomes	TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr7:52650958_52650959insA								None (None upstream) : POM121L12 (452390 downstream)																							cagcagttgtgagttcacagct	0.000													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	98408891	98408893	+	IGR	DEL	TAG	-	-	rs140739561	by1000genomes	TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr7:98408891_98408893delTAG								NPTX2 (149710 upstream) : TMEM130 (35219 downstream)																							gtggtggtgatagtggtggtggt	0.000													4	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	8	41292930	41292932	+	IGR	DEL	GAG	-	-			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr8:41292930_41292932delGAG								SFRP1 (125950 upstream) : GOLGA7 (55149 downstream)																							ggagaaggaagaggaggaggagg	0.429													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	34352482	34352483	+	IGR	INS	-	G	G	rs143859169	by1000genomes	TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr9:34352482_34352483insG								NUDT2 (8787 upstream) : KIAA1161 (16425 downstream)																							GGAAAGGCAGTGGGGGGGGCGG	0.460													4	2	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	99257106	99257110	+	IGR	DEL	CTCCC	-	-	rs10570859		TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chr9:99257106_99257110delCTCCC								HABP4 (3489 upstream) : CDC14B (5287 downstream)																							cccatcccgtctcccctcccctccc	0.000													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	17976962	17976962	+	IGR	DEL	C	-	-			TCGA-EL-A3MW-01A-11D-A20C-08	TCGA-EL-A3MW-11A-11D-A20C-08									Somatic	Phase_I	Capture				Illumina GAIIx	0f349b8b-7642-4276-ad9a-5a76030309d8	ed837939-2741-45c0-90a3-8ec7995d5eb5	g.chrX:17976962delC								RAI2 (97505 upstream) : BEND2 (204091 downstream)																							TCTCAAGGCACCCCCCCCCCA	0.463													4	4	---	---	---	---					
