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
KRTAP5-5	439915	broad.mit.edu	37	11	1651241	1651241	+	Silent	SNP	A	C	C			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr11:1651241A>C	uc001lty.2	+	1	209	c.171A>C	c.(169-171)GGA>GGC	p.G57G		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	57						keratin filament				lung(1)	1		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		gctgtgggggatgtggctccg	0.264000													8	213	---	---	---	---	0	0	0.457914	0	0
ADAM6	8755	broad.mit.edu	37	14	106573651	106573651	+	RNA	SNP	A	G	G			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr14:106573651A>G	uc010tyt.1	-	1359		c.28954T>C								Parts of antibodies, mostly variable regions.												0						TAATAGCAACAAGGAAAACCC	0.463000													5	139	---	---	---	---	0	0	0.278610	0	0
GOLGA6L10	647042	broad.mit.edu	37	15	82635117	82635117	+	RNA	SNP	T	C	C			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr15:82635117T>C	uc002bgx.2	-	5		c.463A>G						A6NI86	GG6LA_HUMAN	Homo sapiens cDNA FLJ40113 fis, clone TESTI2008621.												0						TTTTTCAATTTCTTGACCCGC	0.383000													4	6	---	---	---	---	0	0	0.217242	0	0
Unknown	0	broad.mit.edu	37	15	102296140	102296140	+	5'Flank	SNP	C	T	T			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr15:102296140C>T	uc002bxr.2	-						uc010usk.1_5'Flank|uc002bxs.2_5'Flank|uc002bxu.1_5'Flank|uc002bxv.1_5'Flank|uc002bxw.1_5'Flank|uc002bxy.1_5'Flank|uc002byb.1_5'Flank|uc002byc.2_5'Flank|uc002byh.2_5'Flank|uc002byj.2_5'Flank|uc002byl.1_5'Flank|uc010usl.1_5'Flank|uc010usn.1_5'Flank|uc002byq.2_5'Flank|uc002byu.2_RNA|uc002byv.2_RNA|uc002byx.3_5'Flank|uc002bza.2_5'Flank|uc002bzb.2_5'Flank|uc002bzc.1_5'Flank|uc002bzd.2_5'Flank|uc002bze.2_5'Flank|uc002bzg.2_5'Flank|uc002bzi.1_5'Flank|uc002bzj.2_5'Flank|uc002bzl.2_5'Flank|uc002bzm.2_5'Flank|uc002bzo.2_5'Flank|uc002bzp.2_5'Flank|uc002bzq.2_5'Flank|uc002bzr.2_5'Flank|uc002bzt.2_5'Flank|uc010usp.1_5'Flank|uc002bzu.2_5'Flank|uc002bzv.3_5'Flank|uc010usq.1_5'Flank|uc010usr.1_5'Flank|uc010uss.1_5'Flank|uc002bzz.2_5'Flank|uc002cab.2_5'Flank|uc002cac.2_5'Flank|uc010ust.1_5'Flank|uc002cad.2_5'Flank|uc010usu.1_5'Flank|uc002cae.2_5'Flank|uc002caf.2_5'Flank					DQ598276																		GTCCAACCTGCACTCGCGTGG	0.602000													11	10	---	---	---	---	0	0	0.387290	0	0
Unknown	0	broad.mit.edu	37	17	21731144	21731144	+	Missense_Mutation	SNP	T	G	G	rs149119138	by1000genomes	TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr17:21731144T>G	uc002gyy.3	+	2	571	c.446T>G	c.(445-447)CTG>CGG	p.L149R						SubName: Full=cDNA FLJ51326, highly similar to Homo sapiens ubiquitin B (UBB), mRNA;																		GTCCTGCGTCTGAGAGGTGGT	0.542000													4	76	---	---	---	---	0	0	0.217242	0	0
KRTAP4-12	83755	broad.mit.edu	37	17	39280114	39280114	+	Silent	SNP	T	C	C			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr17:39280114T>C	uc002hwa.2	-	1	306	c.261A>G	c.(259-261)AGA>AGG	p.R87R		NM_031854	NP_114060	Q9BQ66	KR412_HUMAN	keratin associated protein 4-12	87	15.|31 X 5 AA repeats of C-C-[GRQVIL]-[SPTR]- [VSTQPC].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			AGCACTGGGGTCTGCAGCAGC	0.607000													6	292	---	---	---	---	0	0	0.307466	0	0
C21orf99	149992	broad.mit.edu	37	21	14414855	14414855	+	RNA	SNP	A	G	G	rs141732548	by1000genomes	TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr21:14414855A>G	uc002yiy.3	+	2		c.292A>G			C21orf99_uc002yja.3_RNA					Homo sapiens C21orf99 protein (C21orf99) mRNA, complete cds.												0						GCCAATGGCCATGCAGAAGTA	0.448000													5	55	---	---	---	---	0	0	0.217242	0	0
PI4KAP2	375133	broad.mit.edu	37	22	21829507	21829507	+	Missense_Mutation	SNP	G	A	A	rs140118179	by1000genomes	TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr22:21829507G>A	uc002zuv.3	-	14	3895	c.1636C>T	c.(1636-1638)CTC>TTC	p.L546F	PI4KAP2_uc002zuw.2_Intron|PI4KAP2_uc011aid.1_Intron					SubName: Full=Putative uncharacterized protein PI4KA;												0						TACTTCAAGAGCTTGATTGTC	0.542000													5	27	---	---	---	---	0	0	0.217242	0	0
TRIOBP	11078	broad.mit.edu	37	22	38120563	38120563	+	Missense_Mutation	SNP	T	C	C			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr22:38120563T>C	uc003atr.2	+	7	2271	c.2000T>C	c.(1999-2001)ATC>ACC	p.I667T	TRIOBP_uc003atu.2_Missense_Mutation_p.I495T|TRIOBP_uc003atq.1_Missense_Mutation_p.I667T|TRIOBP_uc003ats.1_Missense_Mutation_p.I495T	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	667					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					AACAGAACCATCCAACAAGAG	0.572000													3	56	---	---	---	---	0	0	0.115264	0	0
MUC7	4589	broad.mit.edu	37	4	71347047	71347047	+	Missense_Mutation	SNP	T	C	C			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr4:71347047T>C	uc011cat.1	+	4	874	c.586T>C	c.(586-588)TCT>CCT	p.S196P	MUC7_uc011cau.1_Missense_Mutation_p.S196P|MUC7_uc003hfj.2_Missense_Mutation_p.S196P|uc011cav.1_Intron	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	196	2.|Thr-rich.					extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			ACCCACACCTTCTGCAACTAC	0.587000													7	191	---	---	---	---	0	0	0.361761	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	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				14	13	---	---	---	---	0	0	0.479597	0	0
Unknown	0	broad.mit.edu	37	9	68413602	68413602	+	RNA	SNP	A	G	G			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr9:68413602A>G	uc004aex.2	+	1		c.157A>G								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		CCTTTTGCTGAAACTCTGGGG	0.602000													2	4	---	---	---	---	0	0	0.115264	0	0
Unknown	0	broad.mit.edu	37	MT	14120	14120	+	RNA	SNP	T	C	C			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chrM:14120T>C	uc004cox.3	+	1		c.1784T>C			uc004coy.2_5'Flank|uc004coz.1_5'Flank					Homo sapiens NADH dehydrogenase subunit 5 (MTND5) mRNA, RNA 5, complete cds; mitochondrial gene for mitochondrial product.																		CTTCTTCCCACTCATCCTAAC	0.383000													3	3	---	---	---	---	0	0	0.115264	0	0
Unknown	0	broad.mit.edu	37	1	114773519	114773519	+	IGR	DEL	A	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr1:114773519delA								SYT6 (77047 upstream) : TRIM33 (161882 downstream)																							acgggaggagaggggagggga	0.169													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	1	149224233	149224234	+	IGR	INS	-	T	T			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr1:149224233_149224234insT								LOC645166 (271179 upstream) : LOC388692 (55242 downstream)																							AGCTCTTGCACCTCCGCCCCGC	0.297													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	2899217	2899218	+	IGR	INS	-	G	G			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr10:2899217_2899218insG								None (None upstream) : PFKP (210534 downstream)																							gaaggaaggaaggaaggaagga	0.163													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	94985788	94985789	+	IGR	INS	-	T	T	rs140557797	by1000genomes	TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr10:94985788_94985789insT								CYP26A1 (148147 upstream) : MYOF (80398 downstream)																							cccagagggagtgttacagtgc	0.000													6	0	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	133571423	133571424	+	IGR	INS	-	T	T			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr10:133571423_133571424insT								TCERG1L (461439 upstream) : PPP2R2D (176536 downstream)																							cgcgctcctgccccacccccac	0.114													2	4	---	---	---	---					
FLI1	2313	broad.mit.edu	37	11	128563777	128563777	+	5'Flank	DEL	G	-	-	rs67811771		TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr11:128563777delG	uc010sbu.1	+						FLI1_uc010sbt.1_Intron|FLI1_uc010sbv.1_5'Flank|FLI1_uc009zci.2_5'Flank|uc001qel.2_Intron	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1						hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		GAGGGGGTGTGGGGGGGGAGG	0.333			T	EWSR1	Ewing sarcoma								3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	12	106420386	106420387	+	IGR	DEL	GA	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr12:106420386_106420387delGA								C12orf75 (655091 upstream) : NUAK1 (36738 downstream)																							caaagagatggagagagagaga	0.000													4	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	16	76003215	76003216	+	IGR	INS	-	TA	TA			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr16:76003215_76003216insTA								TERF2IP (311887 upstream) : CNTNAP4 (307960 downstream)																							cttcctcctcctcttcctcctc	0.000													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	16	86452975	86452976	+	IGR	INS	-	TGG	TGG			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr16:86452975_86452976insTGG								LOC732275 (73690 upstream) : FOXF1 (91157 downstream)																							gatggtgatgatggtggtgatg	0.000													2	4	---	---	---	---					
TBKBP1	9755	broad.mit.edu	37	17	45786123	45786124	+	Frame_Shift_Ins	INS	-	C	C			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr17:45786123_45786124insC	uc002ilu.2	+	8	1873_1874	c.1024_1025insC	c.(1024-1026)TCCfs	p.S342fs		NM_014726	NP_055541	A7MCY6	TBKB1_HUMAN	TBK1 binding protein 1	342					innate immune response						0						ACAACGCCACTCCCCGGCCCCC	0.436													2	4	---	---	---	---					
HNRNPL	3191	broad.mit.edu	37	19	39340626	39340626	+	5'Flank	DEL	C	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr19:39340626delC	uc010xul.1	-						HNRNPL_uc010xum.1_Intron	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L						nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			GAACCCGCCTCCCCCCGCCTC	0.771													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	118372193	118372194	+	IGR	DEL	AC	-	-	rs10198944	by1000genomes	TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr2:118372193_118372194delAC								None (None upstream) : DDX18 (200061 downstream)																							tcatacccatacacacacacac	0.069													4	4	---	---	---	---					
ANKRD44	91526	broad.mit.edu	37	2	197943383	197943384	+	Frame_Shift_Del	DEL	TG	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr2:197943383_197943384delTG	uc002uub.2	-	16	1860_1861	c.1693_1694delCA	c.(1693-1695)CATfs	p.H565fs	ANKRD44_uc002utz.3_Intron|ANKRD44_uc002uua.1_Intron|ANKRD44_uc010zgw.1_Frame_Shift_Del_p.H493fs	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			ATTTGGGGTATGTGTGTGTGTG	0.342													4	9	---	---	---	---					
Unknown	0	broad.mit.edu	37	20	29557707	29557707	+	IGR	DEL	G	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr20:29557707delG								None (None upstream) : FRG1B (54172 downstream)																							TCCTGGGCCTGGGCCTGGCCT	0.597													2	4	---	---	---	---					
SELM	140606	broad.mit.edu	37	22	31503581	31503581	+	5'Flank	DEL	C	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr22:31503581delC	uc011ali.1	-						SELM_uc011alj.1_Intron|INPP5J_uc010gwf.2_5'Flank	NM_080430	NP_536355	Q8WWX9	SELM_HUMAN	selenoprotein M precursor							endoplasmic reticulum|Golgi apparatus|nucleus|perinuclear region of cytoplasm					0						cccgcccccgcccccgccccc	0.607													5	9	---	---	---	---					
Unknown	0	broad.mit.edu	37	22	47615361	47615364	+	IGR	DEL	CCCT	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr22:47615361_47615364delCCCT								TBC1D22A (45639 upstream) : None (None downstream)																							ACCAGCCCACCCCTCCCTCCCTCC	0.539													2	4	---	---	---	---					
EXOSC7	23016	broad.mit.edu	37	3	45017687	45017688	+	5'Flank	INS	-	G	G			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr3:45017687_45017688insG	uc003coi.2	+						ZDHHC3_uc003cod.2_5'Flank|ZDHHC3_uc003cog.2_5'Flank|ZDHHC3_uc011bad.1_5'Flank|EXOSC7_uc003coh.1_Intron|EXOSC7_uc011bae.1_5'Flank|EXOSC7_uc010his.1_5'Flank|EXOSC7_uc003coj.2_5'Flank	NM_015004	NP_055819	Q15024	EXOS7_HUMAN	exosome component 7						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	3'-5'-exoribonuclease activity|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00911)|KIRC - Kidney renal clear cell carcinoma(197;0.0509)|Kidney(197;0.064)		TGACGCGGGGCGGGGGGGGGTG	0.767													4	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	4	1630312	1630312	+	IGR	DEL	G	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr4:1630312delG								CRIPAK (240530 upstream) : FAM53A (11297 downstream)																							agcatgccacggggggagggt	0.000													4	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	4	1750962	1750962	+	IGR	DEL	C	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr4:1750962delC								TACC3 (4067 upstream) : FGFR3 (44077 downstream)																							ctccccacctcccccctcccc	0.134													4	9	---	---	---	---					
PARM1	25849	broad.mit.edu	37	4	75858270	75858272	+	5'Flank	DEL	GCG	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr4:75858270_75858272delGCG	uc003hih.1	+							NM_015393	NP_056208	Q6UWI2	PARM1_HUMAN	prostatic androgen-repressed message-1						positive regulation of telomerase activity	early endosome|endosome membrane|Golgi membrane|integral to membrane|late endosome|plasma membrane				ovary(1)	1						agcggcaggcgcggcggcggcgg	0.586													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	5	20560578	20560579	+	IGR	DEL	AC	-	-	rs72247985		TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr5:20560578_20560579delAC								CDH18 (572271 upstream) : GUSBP1 (781363 downstream)																							CAacactcatacacacacacac	0.257													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	1236229	1236230	+	IGR	DEL	GC	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr7:1236229_1236230delGC								ZFAND2A (36374 upstream) : UNCX (36424 downstream)																							tgaagggggggcgggtgggggg	0.050													5	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	3311229	3311230	+	IGR	INS	-	G	G			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr7:3311229_3311230insG								CARD11 (227650 upstream) : SDK1 (29850 downstream)																							aagatgatggtgGCCgtgctgg	0.030													2	4	---	---	---	---					
PHF14	9678	broad.mit.edu	37	7	11022691	11022693	+	In_Frame_Del	DEL	AAG	-	-			TCGA-EM-A3FJ-01A-11D-A21A-08	TCGA-EM-A3FJ-10A-01D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	2c70333f-3776-4588-8890-192dc5d8b2f0	f6afff5d-9375-44a5-b67e-b82c0a4a6310	g.chr7:11022691_11022693delAAG	uc003sry.1	+	3	1240_1242	c.805_807delAAG	c.(805-807)AAGdel	p.K272del	PHF14_uc011jxi.1_Intron|PHF14_uc003srz.2_In_Frame_Del_p.K272del|PHF14_uc011jxj.1_Intron	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	272							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		AGGGGGTTGCAAGAAGAAGAAGA	0.291													2	4	---	---	---	---					
