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
S1PR1	1901	broad.mit.edu	37	1	101705451	101705451	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr1:101705451C>T	uc001dud.2	+	2	1425	c.911C>T	c.(910-912)TCC>TTC	p.S304F	S1PR1_uc009weg.2_Missense_Mutation_p.S304F	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	304	Helical; Name=7; (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						GTGCTCAACTCCGGCACCAAC	0.567000													126	205	---	---	---	---	0	0	0.139131	0	0
OPN4	94233	broad.mit.edu	37	10	88419674	88419674	+	Missense_Mutation	SNP	T	C	C			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr10:88419674T>C	uc001kdq.2	+	6	1050	c.823T>C	c.(823-825)TGC>CGC	p.C275R	OPN4_uc001kdp.2_Missense_Mutation_p.C286R|OPN4_uc010qmk.1_Missense_Mutation_p.C286R|OPN4_uc009xsx.1_5'Flank	NM_033282	NP_150598	Q9UHM6	OPN4_HUMAN	opsin 4 isoform 1	275	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|rhythmic process|visual perception	integral to membrane|plasma membrane	11-cis retinal binding|G-protein coupled photoreceptor activity			ovary(1)	1						CTTCGGGGCCTGCAAGGGCAA	0.637000													3	51	---	---	---	---	0	0	0.009096	0	0
GBF1	8729	broad.mit.edu	37	10	104119094	104119094	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr10:104119094G>A	uc001kux.1	+	11	1319	c.1079G>A	c.(1078-1080)TGC>TAC	p.C360Y	GBF1_uc001kuw.2_3'UTR|GBF1_uc001kuy.1_Missense_Mutation_p.C360Y|GBF1_uc001kuz.1_Missense_Mutation_p.C361Y	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	360					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		TTAGAGGAGTGCACGTCCCCT	0.552000													19	37	---	---	---	---	0	0	0.069288	0	0
OR5B3	441608	broad.mit.edu	37	11	58170795	58170795	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr11:58170795G>A	uc010rkf.1	-	1	88	c.88C>T	c.(88-90)CCC>TCC	p.P30S		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TAGATGAAGGGGAACGTTATA	0.398000													5	126	---	---	---	---	0	0	0.029380	0	0
TYR	7299	broad.mit.edu	37	11	88911586	88911586	+	Silent	SNP	C	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr11:88911586C>A	uc001pcs.2	+	1	547	c.465C>A	c.(463-465)ACC>ACA	p.T155T		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	155	Lumenal, melanosome (Potential).		T -> S (in OCA1A).		eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	CCATAGGGACCTATGGCCAAA	0.413000									Oculocutaneous_Albinism				49	74	---	---	---	---	8.00217e-19	9.08354e-19	0.139131	1	0
ASAM	79827	broad.mit.edu	37	11	122945484	122945484	+	Silent	SNP	G	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr11:122945484G>A	uc001pyt.2	-	6	1106	c.747C>T	c.(745-747)TTC>TTT	p.F249F		NM_024769	NP_079045	Q9H6B4	CLMP_HUMAN	adipocyte-specific adhesion molecule precursor	249	Helical; (Potential).					integral to membrane|tight junction					0		Breast(109;0.0025)|Lung NSC(97;0.0179)|all_lung(97;0.0182)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.73e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		ACACCAAGAGGAAAATCAGCA	0.443000													9	63	---	---	---	---	0	0	0.033300	0	0
PZP	5858	broad.mit.edu	37	12	9352975	9352975	+	Missense_Mutation	SNP	A	C	C			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr12:9352975A>C	uc001qvl.2	-	7	769	c.740T>G	c.(739-741)ATA>AGA	p.I247R	PZP_uc009zgl.2_Missense_Mutation_p.I116R	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						ACAGACTGTTATGTTCACTTT	0.313000													7	16	---	---	---	---	0	0	0.029380	0	0
C12orf11	55726	broad.mit.edu	37	12	27089676	27089676	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr12:27089676C>T	uc001rhk.3	-	2	598	c.61G>A	c.(61-63)GCA>ACA	p.A21T	C12orf11_uc010sjk.1_Intron|FGFR1OP2_uc001rhl.2_5'Flank|FGFR1OP2_uc001rhm.2_5'Flank|FGFR1OP2_uc001rhn.2_5'Flank	NM_018164	NP_060634	Q9NVM9	M89BB_HUMAN	hypothetical protein LOC55726	21					cell division|mitosis|regulation of mitotic cell cycle		protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	Colorectal(261;0.0847)					CAAGATTCTGCCATATAAGGG	0.383000													3	63	---	---	---	---	0	0	0.115264	0	0
SNRNP35	11066	broad.mit.edu	37	12	123950629	123950629	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr12:123950629G>A	uc001ufb.1	+	2	658	c.542G>A	c.(541-543)CGG>CAG	p.R181Q	SNRNP35_uc010tar.1_Missense_Mutation_p.R186Q|SNRNP35_uc009zxz.2_Missense_Mutation_p.R186Q|SNRNP35_uc001ufc.1_Intron	NM_022717	NP_073208	Q16560	U1SBP_HUMAN	small nuclear ribonucleoprotein 35kDa (U11/U12)	181	Arg-rich.				mRNA processing	U12-type spliceosomal complex	nucleotide binding|RNA binding				0						GAGGGAAAACGGGAAAGGCGG	0.527000													6	56	---	---	---	---	0	0	0.029380	0	0
SDCCAG1	9147	broad.mit.edu	37	14	50318332	50318332	+	Silent	SNP	T	C	C			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr14:50318332T>C	uc001wxc.2	-	3	248	c.180A>G	c.(178-180)ACA>ACG	p.T60T	SDCCAG1_uc010anj.1_Silent_p.T60T|SDCCAG1_uc010tqi.1_Silent_p.T60T|SDCCAG1_uc001wxe.2_Silent_p.T60T|SDCCAG1_uc010anq.1_5'UTR	NM_004713	NP_004704	O60524	NEMF_HUMAN	serologically defined colon cancer antigen 1	60						cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)		CAAATTCTGTTGTATGAATTC	0.358000													3	47	---	---	---	---	0	0	0.009096	0	0
MTHFD1	4522	broad.mit.edu	37	14	64908830	64908830	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr14:64908830C>T	uc001xhb.2	+	20	2330	c.1943C>T	c.(1942-1944)TCC>TTC	p.S648F	MTHFD1_uc010aqf.2_Missense_Mutation_p.S704F	NM_005956	NP_005947	P11586	C1TC_HUMAN	methylenetetrahydrofolate dehydrogenase 1	648	Formyltetrahydrofolate synthetase.				folic acid metabolic process|folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process	cytosol|mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|methylenetetrahydrofolate dehydrogenase|protein binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(108;8.7e-12)|all cancers(60;3.29e-11)|BRCA - Breast invasive adenocarcinoma(234;0.0488)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	GGCAATTCCTCCATCATTGCA	0.498000													4	46	---	---	---	---	0	0	0.014758	0	0
MAPKBP1	23005	broad.mit.edu	37	15	42115281	42115281	+	Silent	SNP	C	T	T			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr15:42115281C>T	uc001zok.3	+	29	3763	c.3477C>T	c.(3475-3477)AGC>AGT	p.S1159S	MAPKBP1_uc001zoj.3_Silent_p.S1153S|MAPKBP1_uc010bcj.2_Silent_p.S660S|MAPKBP1_uc010bci.2_Intron|MAPKBP1_uc010udb.1_Silent_p.S992S|MAPKBP1_uc010bck.2_Silent_p.S370S|MAPKBP1_uc010bcl.2_Silent_p.S660S	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	1159										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		GCAACCCCAGCCCCCAGCAGG	0.657000													22	28	---	---	---	---	0	0	0.055883	0	0
YBX2	51087	broad.mit.edu	37	17	7193773	7193773	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr17:7193773G>A	uc002gfq.2	-	5	598	c.541C>T	c.(541-543)CGC>TGC	p.R181C		NM_015982	NP_057066	Q9Y2T7	YBOX2_HUMAN	Y box binding protein 2	181					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter|translational attenuation	cytoplasm|nucleus	DNA binding				0						ATGAATCGGCGGGACTTACGT	0.647000													3	55	---	---	---	---	0	0	0.115264	0	0
Unknown	0	broad.mit.edu	37	17	39296152	39296152	+	RNA	SNP	A	G	G			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr17:39296152A>G	uc010cxk.1	-	1		c.552T>C								Homo sapiens partial mRNA for keratin associated protein 4.6 (KRTAP4.6 gene).																		AGCACAAGGGACGGGGGCAGG	0.507000													3	9	---	---	---	---	0	0	0.115264	0	0
Unknown	0	broad.mit.edu	37	17	39296167	39296167	+	RNA	SNP	A	G	G			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr17:39296167A>G	uc010cxk.1	-	1		c.537T>C								Homo sapiens partial mRNA for keratin associated protein 4.6 (KRTAP4.6 gene).																		GGCAGGTGGAAATGACACAGG	0.478000													3	10	---	---	---	---	0	0	0.115264	0	0
STXBP4	252983	broad.mit.edu	37	17	53063607	53063607	+	Silent	SNP	A	G	G			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr17:53063607A>G	uc002iuf.1	+	3	234	c.27A>G	c.(25-27)GTA>GTG	p.V9V	STXBP4_uc010dcc.1_5'UTR|STXBP4_uc010dcd.1_Silent_p.V9V	NM_178509	NP_848604	Q6ZWJ1	STXB4_HUMAN	syntaxin binding protein 4	9						cytoplasm	calcium ion binding			ovary(1)	1						CTACTGTAGTATCACCCAGTC	0.259000													24	35	---	---	---	---	0	0	0.116897	0	0
MYOM1	8736	broad.mit.edu	37	18	3102502	3102502	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr18:3102502G>A	uc002klp.2	-	23	3879	c.3545C>T	c.(3544-3546)CCA>CTA	p.P1182L	MYOM1_uc002klq.2_Missense_Mutation_p.P1086L	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	1182	Ig-like C2-type 3.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						TTCCAATCGTGGAGAGTCCTC	0.433000													25	110	---	---	---	---	0	0	0.116897	0	0
C2orf86	51057	broad.mit.edu	37	2	63631601	63631601	+	Silent	SNP	C	T	T			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr2:63631601C>T	uc002sch.2	-	10	1463	c.1017G>A	c.(1015-1017)AAG>AAA	p.K339K	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Silent_p.K180K|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Silent_p.K147K|C2orf86_uc002sci.1_Silent_p.K315K|C2orf86_uc010fcr.1_Silent_p.K229K	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	339	WD 1.				cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						AGCTGATGGCCTTTGACTTTA	0.433000													3	95	---	---	---	---	0	0	0.115264	0	0
TMPRSS15	5651	broad.mit.edu	37	21	19770630	19770630	+	Silent	SNP	C	T	T			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr21:19770630C>T	uc002ykw.2	-	2	193	c.162G>A	c.(160-162)CAG>CAA	p.Q54Q		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	54	Extracellular (Potential).|SEA.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						CTTCATGACTCTGTCCAAGTG	0.343000													4	67	---	---	---	---	0	0	0.009096	0	0
HLA-DOA	3111	broad.mit.edu	37	6	32974902	32974902	+	Missense_Mutation	SNP	C	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr6:32974902C>A	uc003ocr.2	-	4	780	c.704G>T	c.(703-705)GGC>GTC	p.G235V	HLA-DOA_uc010juj.2_Intron|HLA-DOA_uc010jui.2_3'UTR	NM_002119	NP_002110	P06340	DOA_HUMAN	major histocompatibility complex, class II, DO	235	Helical; (Potential).				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endosome membrane|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0						GAGGACGGTGCCCACGAGGAA	0.627000													4	77	---	---	---	---	0.00909568	0.00979535	0.009096	1	0
VEGFA	7422	broad.mit.edu	37	6	43742103	43742103	+	Missense_Mutation	SNP	A	G	G			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr6:43742103A>G	uc003owc.2	+	2	1123	c.92A>G	c.(91-93)GAA>GGA	p.E31G	VEGFA_uc003owb.2_Missense_Mutation_p.E31G|VEGFA_uc003owd.2_Missense_Mutation_p.E211G|VEGFA_uc003owf.2_Missense_Mutation_p.E211G|VEGFA_uc003owe.2_Missense_Mutation_p.E211G|VEGFA_uc003owg.2_Missense_Mutation_p.E211G|VEGFA_uc003owh.2_Missense_Mutation_p.E211G|VEGFA_uc003owi.2_Missense_Mutation_p.E211G|VEGFA_uc003owj.2_Missense_Mutation_p.E211G|VEGFA_uc010jyx.2_Missense_Mutation_p.E31G	NM_001025370	NP_001020541	P15692	VEGFA_HUMAN	vascular endothelial growth factor A isoform f	31					basophil chemotaxis|cellular response to hypoxia|induction of positive chemotaxis|induction of positive chemotaxis|platelet activation|platelet degranulation|platelet-derived growth factor receptor signaling pathway|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of cell adhesion|positive regulation of cell division|positive regulation of endothelial cell proliferation|positive regulation of leukocyte migration|positive regulation of mast cell chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|positive regulation of vascular permeability|regulation of cell shape|vascular endothelial growth factor receptor signaling pathway|vasculogenesis	cell surface|extracellular space|membrane|platelet alpha granule lumen	cell surface binding|chemoattractant activity|cytokine activity|fibronectin binding|growth factor activity|heparin binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|vascular endothelial growth factor receptor 1 binding|vascular endothelial growth factor receptor 2 binding|vascular endothelial growth factor receptor binding			ovary(1)|breast(1)	2	all_cancers(18;5.46e-07)|all_epithelial(2;5.96e-08)|Lung NSC(15;0.000157)|all_lung(25;0.000486)|Hepatocellular(11;0.00309)		all cancers(41;0.000413)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0742)|OV - Ovarian serous cystadenocarcinoma(102;0.196)		Atorvastatin(DB01076)|Bevacizumab(DB00112)|Carvedilol(DB01136)|Ginkgo biloba(DB01381)|Gliclazide(DB01120)|Minocycline(DB01017)|Ranibizumab(DB01270)|Simvastatin(DB00641)	CCCATGGCAGAAGGAGGAGGG	0.617000											OREG0017458	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	36	---	---	---	---	0	0	0.021553	0	0
SIM1	6492	broad.mit.edu	37	6	100838751	100838751	+	Missense_Mutation	SNP	T	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr6:100838751T>A	uc003pqj.3	-	11	1994	c.1787A>T	c.(1786-1788)AAT>ATT	p.N596I	SIM1_uc010kcu.2_Missense_Mutation_p.N596I	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	596	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		CCCAGCCCCATTAATGGAAGC	0.458000													26	32	---	---	---	---	0	0	0.083992	0	0
FLNC	2318	broad.mit.edu	37	7	128478773	128478773	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr7:128478773G>A	uc003vnz.3	+	8	1536	c.1327G>A	c.(1327-1329)GCC>ACC	p.A443T	FLNC_uc003voa.3_Missense_Mutation_p.A443T	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	443	Filamin 2.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						ATACAGACCTGCCATGGAGGG	0.632000													38	90	---	---	---	---	0	0	0.074837	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	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				30	36	---	---	---	---	0	0	0.050027	0	0
KIAA1529	57653	broad.mit.edu	37	9	100085164	100085164	+	Missense_Mutation	SNP	G	C	C			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr9:100085164G>C	uc011lut.1	+	24	2531	c.1758G>C	c.(1756-1758)AAG>AAC	p.K586N	KIAA1529_uc004axe.1_Missense_Mutation_p.K586N|KIAA1529_uc004axg.1_Missense_Mutation_p.K447N|KIAA1529_uc011lus.1_Missense_Mutation_p.K404N|KIAA1529_uc010msm.1_RNA|KIAA1529_uc004axf.2_Missense_Mutation_p.K447N|KIAA1529_uc011luv.1_Missense_Mutation_p.K444N	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				TGTATGAGAAGACATGGCAGG	0.532000													12	18	---	---	---	---	0	0	0.132662	0	0
TRIM32	22954	broad.mit.edu	37	9	119460294	119460294	+	Silent	SNP	C	T	T			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr9:119460294C>T	uc004bjx.2	+	2	431	c.273C>T	c.(271-273)CTC>CTT	p.L91L	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Silent_p.L91L	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	91					fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						CAGCTGGGCTCAGCGAGGCTG	0.582000									Bardet-Biedl_syndrome				31	38	---	---	---	---	0	0	0.059317	0	0
PPEF1	5475	broad.mit.edu	37	X	18748426	18748426	+	Missense_Mutation	SNP	G	T	T			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chrX:18748426G>T	uc004cyq.2	+	5	655	c.174G>T	c.(172-174)CAG>CAT	p.Q58H	PPEF1_uc004cyp.2_Missense_Mutation_p.Q58H|PPEF1_uc004cyr.2_Missense_Mutation_p.Q58H|PPEF1_uc004cys.2_Missense_Mutation_p.Q58H|PPEF1_uc011mja.1_Intron|PPEF1_uc011mjb.1_Missense_Mutation_p.Q2H	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	58					detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					GCCAAATGCAGGTCTGTTTTG	0.423000													73	110	---	---	---	---	9.42754e-34	1.09988e-33	0.139131	1	0
GLRA4	441509	broad.mit.edu	37	X	102977177	102977177	+	Silent	SNP	A	G	G			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chrX:102977177A>G	uc011mse.1	-	6	1042	c.621T>C	c.(619-621)GAT>GAC	p.D207D	GLRA4_uc010nou.2_Silent_p.D207D	NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	207	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						CAGCAGGAGCATCTTCCAGCC	0.537000													9	208	---	---	---	---	0	0	0.058154	0	0
ATN1	1822	broad.mit.edu	37	12	7045484	7045484	+	Frame_Shift_Del	DEL	C	-	-			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr12:7045484delC	uc001qrw.1	+	5	1291	c.1054delC	c.(1054-1056)CTGfs	p.L352fs	ATN1_uc001qrx.1_Frame_Shift_Del_p.L352fs|ATN1_uc001qry.1_Frame_Shift_Del_p.L351fs	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	352					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						GGGCCCAACTCTGGCTCCTTC	0.607													61	122	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	20416848	20416849	+	IGR	INS	-	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr17:20416848_20416849insA								LGALS9B (46000 upstream) : CCDC144NL (349861 downstream)																							CAGGCTGAAAGAAAAAAAAAAA	0.554													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	119453198	119453201	+	IGR	DEL	GAAG	-	-	rs10176439		TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr2:119453198_119453201delGAAG								INSIG2 (585602 upstream) : EN1 (146547 downstream)																							gaaagagagagaaggaaggaagga	0.000													2	4	---	---	---	---					
LY75	4065	broad.mit.edu	37	2	160637475	160637477	+	In_Frame_Del	DEL	TTC	-	-			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr2:160637475_160637477delTTC	uc002ubb.3	-	36	5203_5205	c.5134_5136delGAA	c.(5134-5136)GAAdel	p.E1712del	LY75_uc010fos.2_In_Frame_Del_p.E1656del|CD302_uc002uba.2_In_Frame_Del_p.E71del|CD302_uc010zco.1_In_Frame_Del_p.E71del	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	1580	Extracellular (Potential).|C-type lectin 10.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		TAAAAGCATTTTCTTCTTCATTA	0.335													28	40	---	---	---	---					
DND1	373863	broad.mit.edu	37	5	140052285	140052285	+	Frame_Shift_Del	DEL	T	-	-			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr5:140052285delT	uc003lgt.2	-	3	393	c.349delA	c.(349-351)ACGfs	p.T117fs		NM_194249	NP_919225	Q8IYX4	DND1_HUMAN	dead end homolog 1	117	RRM 1.				multicellular organismal development|negative regulation of gene silencing by miRNA	cytoplasm|nucleus	AU-rich element binding|nucleotide binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGTGCAGCGTGGCGATGGCG	0.682													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	141036751	141036752	+	IGR	INS	-	A	A			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chr7:141036751_141036752insA								MRPS33 (321970 upstream) : AGK (214326 downstream)																							accatcaccaccaccaccatca	0.000													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	24447606	24447607	+	IGR	INS	-	T	T			TCGA-DJ-A1QH-01A-21D-A14W-08	TCGA-DJ-A1QH-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	41addb07-cde1-4a1c-934e-15aa3627f7e4	54ca3f7a-ee20-494f-8af5-8724334955e3	g.chrX:24447606_24447607insT								FAM48B1 (64066 upstream) : PDK3 (35737 downstream)																							aattaaacctcttttttttTTT	0.163													2	4	---	---	---	---					
