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
OSBPL9	114883	broad.mit.edu	37	1	52251509	52251509	+	Nonsense_Mutation	SNP	C	G	G			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr1:52251509C>G	uc001cst.2	+	21	1878	c.1859C>G	c.(1858-1860)TCA>TGA	p.S620*	OSBPL9_uc001css.2_Nonsense_Mutation_p.S625*|OSBPL9_uc001csx.2_RNA|OSBPL9_uc009vza.2_Nonsense_Mutation_p.S621*|OSBPL9_uc001csu.2_Nonsense_Mutation_p.S630*|OSBPL9_uc001csv.2_Nonsense_Mutation_p.S455*|OSBPL9_uc001csw.2_Nonsense_Mutation_p.S607*|OSBPL9_uc001csy.2_Nonsense_Mutation_p.S442*|OSBPL9_uc001csz.2_Nonsense_Mutation_p.S442*|OSBPL9_uc001cta.2_Nonsense_Mutation_p.S510*|OSBPL9_uc001ctb.2_Nonsense_Mutation_p.S405*	NM_024586	NP_078862	Q96SU4	OSBL9_HUMAN	oxysterol binding protein-like 9 isoform e	620					lipid transport		lipid binding			central_nervous_system(1)	1						TCTTTTTGCTCAATTGAAGGG	0.378													4	62	---	---	---	---	0	0	0.014758	0	0
AMY2B	280	broad.mit.edu	37	1	104117852	104117852	+	Missense_Mutation	SNP	G	A	A	rs147215616	byFrequency	TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr1:104117852G>A	uc001duq.2	+	8	1502	c.886G>A	c.(886-888)GGA>AGA	p.G296R	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.G296R|AMY2B_uc001dus.1_5'Flank	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	296					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		TAGGAACTGGGGAGAAGGTTG	0.418													6	166	---	---	---	---	0	0	0.029380	0	0
SUOX	6821	broad.mit.edu	37	12	56396496	56396496	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr12:56396496C>T	uc001six.2	+	5	546	c.220C>T	c.(220-222)CGG>TGG	p.R74W	SUOX_uc009zoh.2_Missense_Mutation_p.R74W|SUOX_uc001siy.2_Missense_Mutation_p.R74W|SUOX_uc001siz.2_Missense_Mutation_p.R74W|SUOX_uc001sja.2_Missense_Mutation_p.R74W	NM_000456	NP_000447	P51687	SUOX_HUMAN	sulfite oxidase precursor	74						mitochondrial intermembrane space	electron carrier activity|molybdenum ion binding|sulfite oxidase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.119)			TCAGGACCATCGGTGTAGGGT	0.378													20	78	---	---	---	---	0	0	0.049695	0	0
Unknown	0	broad.mit.edu	37	14	19857036	19857036	+	RNA	SNP	A	G	G			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr14:19857036A>G	uc001vvq.1	-	5		c.494T>C								Homo sapiens cDNA FLJ12852 fis, clone NT2RP2003445.																		CTGGATAATAAAGTTCATCTC	0.373													5	44	---	---	---	---	0	0	0.014758	0	0
THBS1	7057	broad.mit.edu	37	15	39885603	39885603	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr15:39885603G>A	uc001zkh.2	+	19	3180	c.3001G>A	c.(3001-3003)GAT>AAT	p.D1001N	THBS1_uc010bbi.2_Missense_Mutation_p.D473N	NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	1001	TSP C-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	TCCAGGTTATGATGAGTTTAA	0.498													17	415	---	---	---	---	0	0	0.038395	0	0
MAP3K3	4215	broad.mit.edu	37	17	61762904	61762904	+	Missense_Mutation	SNP	A	T	T			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr17:61762904A>T	uc002jbg.2	+	8	983	c.664A>T	c.(664-666)AAT>TAT	p.N222Y	MAP3K3_uc002jbe.2_Missense_Mutation_p.N253Y|MAP3K3_uc002jbf.2_Missense_Mutation_p.N253Y|MAP3K3_uc002jbh.2_Missense_Mutation_p.N253Y|MAP3K3_uc010wpo.1_Missense_Mutation_p.N137Y|MAP3K3_uc010wpp.1_Missense_Mutation_p.N222Y	NM_002401	NP_002392	Q99759	M3K3_HUMAN	mitogen-activated protein kinase kinase kinase 3	222					MAPKKK cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autophosphorylation	cytosol	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			lung(3)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)	6						CAGTGCAGAAAATTCCTTGTC	0.512													32	62	---	---	---	---	0	0	0.045705	0	0
MYH14	79784	broad.mit.edu	37	19	50720898	50720898	+	Silent	SNP	C	T	T			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr19:50720898C>T	uc002prr.1	+	3	479	c.432C>T	c.(430-432)GTC>GTT	p.V144V	MYH14_uc010enu.1_Silent_p.V144V|MYH14_uc002prq.1_Silent_p.V144V	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	144	Myosin head-like.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		TCTGTGTGGTCATCAACCCGT	0.572													13	164	---	---	---	---	0	0	0.093190	0	0
FAM182B	728882	broad.mit.edu	37	20	25848629	25848629	+	RNA	SNP	C	T	T			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr20:25848629C>T	uc002wvd.1	-	1		c.158G>A								Homo sapiens cDNA FLJ30282 fis, clone BRACE2002803.												0						gctgggatgccgtgctgcttc	0													3	9	---	---	---	---	0	0	0.004672	0	0
POM121L9P	29774	broad.mit.edu	37	22	24659591	24659591	+	RNA	SNP	A	G	G			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr22:24659591A>G	uc002zzs.3	+	7		c.3323A>G			uc011ajp.1_5'Flank	NR_003714				Homo sapiens mRNA; cDNA DKFZp434P211 (from clone DKFZp434P211).												0						ACTCACTGACATCGAAGGCTG	0.632													4	27	---	---	---	---	0	0	0.009096	0	0
CRELD1	78987	broad.mit.edu	37	3	9976166	9976166	+	Nonsense_Mutation	SNP	G	A	A			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr3:9976166G>A	uc003bug.2	+	2	162	c.44G>A	c.(43-45)TGG>TAG	p.W15*	CIDEC_uc003bto.2_Intron|CRELD1_uc003buf.2_Nonsense_Mutation_p.W15*|CRELD1_uc003buh.2_Nonsense_Mutation_p.W15*|CRELD1_uc003bui.2_Nonsense_Mutation_p.W15*|CRELD1_uc003buj.2_RNA	NM_001077415	NP_001070883	Q96HD1	CREL1_HUMAN	cysteine-rich with EGF-like domains 1 isoform 3	15	Pro-rich.				cardiac septum development|endocardial cushion development	integral to membrane	calcium ion binding			ovary(1)	1						GCTATGCTCTGGGGCCTCAGC	0.637													5	96	---	---	---	---	0	0	0.021553	0	0
SLC39A7	7922	broad.mit.edu	37	6	33171577	33171577	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr6:33171577C>T	uc003odf.2	+	8	1514	c.1397C>T	c.(1396-1398)GCC>GTC	p.A466V	RXRB_uc011dqr.1_5'Flank|SLC39A7_uc003odg.2_Missense_Mutation_p.A466V|SLC39A7_uc011dqv.1_Missense_Mutation_p.A341V|SLC39A7_uc003odh.2_Missense_Mutation_p.A114V|HSD17B8_uc003odi.1_5'Flank	NM_001077516	NP_001070984	Q92504	S39A7_HUMAN	solute carrier family 39, member 7	466				CALLTEGGAVGSEIAGGAGPGWVLPFTAGGFIYVATVSVLP ELLREASPLQSLLEVLGLLGGVIMMVLIAHLE -> VPFSL KEEQWTVKLQVVQVLAGSCHLLQVALST (in Ref. 1; BAA11528 and 2; AAD12305).		endoplasmic reticulum membrane|integral to membrane|membrane fraction	protein binding|zinc ion transmembrane transporter activity			large_intestine(1)	1						GTGCTGATTGCCCACCTTGAG	0.597													23	54	---	---	---	---	0	0	0.069288	0	0
AZGP1	563	broad.mit.edu	37	7	99569418	99569418	+	Missense_Mutation	SNP	G	C	C			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr7:99569418G>C	uc003ush.2	-	2	332	c.288C>G	c.(286-288)ATC>ATG	p.I96M		NM_001185	NP_001176	P25311	ZA2G_HUMAN	alpha-2-glycoprotein 1, zinc	96				Missing (in Ref. 9; AA sequence).	antigen processing and presentation|cell adhesion|immune response|lipid catabolic process|negative regulation of cell proliferation	extracellular region|MHC class I protein complex	fatty acid binding|protein transmembrane transporter activity|ribonuclease activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)					TCTCCATAAAGATGTCCTCCC	0.517													6	118	---	---	---	---	0	0	0.021553	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	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				20	19	---	---	---	---	0	0	0.043863	0	0
Unknown	0	broad.mit.edu	37	15	102306788	102306790	+	5'Flank	DEL	GTA	-	-			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr15:102306788_102306790delGTA	uc002cbx.1	-						uc002ccc.1_5'Flank|uc002ccm.1_5'Flank					DQ582460																		TTAGTCTGTTGTAGTGGTGAGCT	0.498													3	5	---	---	---	---					
SETD1A	9739	broad.mit.edu	37	16	30990483	30990483	+	Frame_Shift_Del	DEL	C	-	-			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr16:30990483delC	uc002ead.1	+	14	4062	c.3376delC	c.(3376-3378)CCCfs	p.P1126fs		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1126	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						GGAGGAGTCACCCCCCAGTGC	0.697													2	4	---	---	---	---					
CDK5RAP3	80279	broad.mit.edu	37	17	46051311	46051311	+	Frame_Shift_Del	DEL	C	-	-			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr17:46051311delC	uc002imr.2	+	4	283	c.199delC	c.(199-201)CACfs	p.H67fs	CDK5RAP3_uc010wlc.1_Frame_Shift_Del_p.H87fs|CDK5RAP3_uc002imq.1_5'UTR|CDK5RAP3_uc002imu.2_5'UTR|CDK5RAP3_uc002ims.2_5'UTR|CDK5RAP3_uc002imv.2_5'UTR|CDK5RAP3_uc002imw.2_5'UTR|CDK5RAP3_uc002imx.2_5'UTR	NM_176096	NP_788276	Q96JB5	CK5P3_HUMAN	CDK5 regulatory subunit associated protein 3	67					brain development|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation		neuronal Cdc2-like kinase binding				0						TCACTACTTTCACTGCCTAAG	0.463													7	196	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	99258675	99258676	+	IGR	INS	-	ACC	ACC	rs142356622	by1000genomes	TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chr9:99258675_99258676insACC								HABP4 (5058 upstream) : CDC14B (3721 downstream)																							GCGCTGTACTTaccaccaccac	0.515													4	5	---	---	---	---					
UTP14A	10813	broad.mit.edu	37	X	129040214	129040215	+	Splice_Site	INS	-	GAAGGGC	GAAGGGC			TCGA-DJ-A2PR-01A-11D-A19J-08	TCGA-DJ-A2PR-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	be525078-277f-4f63-9e91-c9db569d85bf	93639137-87a5-48bb-a83b-e5114e86de70	g.chrX:129040214_129040215insGAAGGGC	uc004euz.2	+	1	54	c.26_splice	c.e1+2	p.S9_splice	UTP14A_uc011mup.1_Splice_Site_p.S9_splice|UTP14A_uc011muq.1_Splice_Site	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,						rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						TGCAGAGAGGTGAAGGGCAACG	0.589													16	49	---	---	---	---					
