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
LOC653544	653544	broad.mit.edu	37	10	135491125	135491125	+	Missense_Mutation	SNP	G	A	A	rs140402194	by1000genomes	TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr10:135491125G>A	uc010qvi.1	+	1	847	c.736G>A	c.(736-738)GCG>ACG	p.A246T		NM_001127389	NP_001120861	F5GZ66	F5GZ66_HUMAN	double homeobox, 4-like	246						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CCACACCGGCGCGTGGGGAAC	0.781000													4	17	---	---	---	---	0	0	0.021553	0	0
IGSF22	283284	broad.mit.edu	37	11	18731052	18731052	+	Nonsense_Mutation	SNP	G	C	C			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr11:18731052G>C	uc009yht.2	-	18	3070	c.2880C>G	c.(2878-2880)TAC>TAG	p.Y960*	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	859	Fibronectin type-III 2.									ovary(4)|large_intestine(2)|kidney(1)	7						CTCCCACTGTGTAGCAGGTGC	0.567000													4	102	---	---	---	---	0	0	0.150653	0	0
PKM2	5315	broad.mit.edu	37	15	72495521	72495521	+	Silent	SNP	A	G	G			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr15:72495521A>G	uc002atx.1	-	9	1390	c.1149T>C	c.(1147-1149)CGT>CGC	p.R383R	PKM2_uc002atr.1_5'Flank|PKM2_uc002ats.1_Intron|PKM2_uc002att.1_Silent_p.R149R|PKM2_uc002atu.1_Intron|PKM2_uc010bit.1_Silent_p.R388R|PKM2_uc010uki.1_Silent_p.R457R|PKM2_uc002atv.1_Silent_p.R418R|PKM2_uc002atw.1_Silent_p.R383R|PKM2_uc002aty.1_Intron|PKM2_uc010ukj.1_Intron|PKM2_uc010ukk.1_Intron|PKM2_uc010biu.1_Silent_p.R404R|PKM2_uc002atz.1_Intron	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	383	Interaction with POU5F1.				glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	CCTCAGCCTCACGAGCTATCT	0.527000													3	42	---	---	---	---	0	0	0.115264	0	0
DNAH2	146754	broad.mit.edu	37	17	7734055	7734055	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr17:7734055G>A	uc002giu.1	+	78	12139	c.12125G>A	c.(12124-12126)GGC>GAC	p.G4042D	DNAH2_uc010cnm.1_Missense_Mutation_p.G980D	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	4042					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CTCATTGCCGGCATCAACTAT	0.507000													3	54	---	---	---	---	0	0	0.115264	0	0
Unknown	0	broad.mit.edu	37	17	45128762	45128762	+	5'Flank	SNP	T	C	C	rs8066232	by1000genomes	TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr17:45128762T>C	uc010wkl.1	-						uc010wkm.1_RNA					Homo sapiens cDNA FLJ38031 fis, clone CTONG2013348.																		TTCTGCCTCATTGTGGTAAGG	0.368000													3	62	---	---	---	---	0	0	0.115264	0	0
AMZ2P1	201283	broad.mit.edu	37	17	62968690	62968690	+	RNA	SNP	A	G	G	rs138671696	by1000genomes	TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr17:62968690A>G	uc002jez.3	-	4		c.641T>C			AMZ2P1_uc002jfa.3_RNA|AMZ2P1_uc002jfb.3_RNA|AMZ2P1_uc010del.2_RNA					Homo sapiens cDNA FLJ32065 fis, clone OCBBF1000086, weakly similar to Archeobacterial metalloproteinase-like protein 2 (EC 3.-.-.-).												0						AAAATTCCACAAGTCTCTTGG	0.373000													5	108	---	---	---	---	0	0	0.014758	0	0
PSG9	5678	broad.mit.edu	37	19	43766171	43766171	+	Missense_Mutation	SNP	C	A	A			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr19:43766171C>A	uc002owd.3	-	3	649	c.550G>T	c.(550-552)GGT>TGT	p.G184C	PSG9_uc002owe.3_Missense_Mutation_p.G184C|PSG9_uc010xwm.1_Intron|PSG9_uc002owf.3_Intron|PSG9_uc002owg.2_Missense_Mutation_p.G184C|PSG9_uc002owh.2_Intron	NM_002784	NP_002775	Q00887	PSG9_HUMAN	pregnancy specific beta-1-glycoprotein 9	184	Ig-like C2-type 1.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				AGGCTCTGACCATTCATCCAC	0.507000													109	165	---	---	---	---	3.29639e-60	3.92427e-60	0.139131	1	0
SPRED2	200734	broad.mit.edu	37	2	65540763	65540763	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr2:65540763G>A	uc002sdr.3	-	6	1664	c.1129C>T	c.(1129-1131)CGG>TGG	p.R377W	SPRED2_uc010fcw.2_Missense_Mutation_p.R374W	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	377	SPR.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						GCCATCCACCGGAGGCAAAAC	0.577000													3	34	---	---	---	---	0	0	0.115264	0	0
RGPD5	84220	broad.mit.edu	37	2	113174792	113174792	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr2:113174792C>T	uc002ths.1	-	6	837	c.760G>A	c.(760-762)GAA>AAA	p.E254K	RGPD8_uc010fkk.1_Intron|RGPD5_uc002tht.1_Intron|RGPD5_uc010yxm.1_Missense_Mutation_p.E254K	NM_005054	NP_005045	Q99666	RGPD5_HUMAN	RANBP2-like and GRIP domain containing 5 isoform	254					intracellular transport	cytoplasm	binding				0						TCTCTATTTTCCTGCACATCT	0.388000													56	102	---	---	---	---	0	0	0.139131	0	0
TMPRSS15	5651	broad.mit.edu	37	21	19666639	19666639	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr21:19666639C>T	uc002ykw.2	-	21	2465	c.2434G>A	c.(2434-2436)GCA>ACA	p.A812T		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	812	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						ACGAGAGATGCGCCGCAGAGC	0.567000													5	64	---	---	---	---	0	0	0.014758	0	0
Unknown	0	broad.mit.edu	37	22	18844900	18844900	+	RNA	SNP	C	T	T			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr22:18844900C>T	uc002zoe.2	+	4		c.2154C>T			uc002zof.2_5'Flank					Homo sapiens cDNA FLJ76361 complete cds.																		ACAGCTTCAGCGTGCCTGCGA	0.577000													7	38	---	---	---	---	0	0	0.038147	0	0
ALPK1	80216	broad.mit.edu	37	4	113362205	113362205	+	Missense_Mutation	SNP	A	G	G			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr4:113362205A>G	uc003iap.3	+	15	3950	c.3671A>G	c.(3670-3672)GAA>GGA	p.E1224G	ALPK1_uc003ian.3_Missense_Mutation_p.E1224G|ALPK1_uc011cfx.1_Missense_Mutation_p.E1146G|ALPK1_uc003iao.3_RNA|ALPK1_uc010imo.2_Missense_Mutation_p.E1052G	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	1224	Alpha-type protein kinase.						ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		CAGCATGTGGAATGTAATGAA	0.383000													56	121	---	---	---	---	0	0	0.139131	0	0
ENPP1	5167	broad.mit.edu	37	6	132171195	132171195	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr6:132171195G>A	uc011ecf.1	+	3	399	c.379G>A	c.(379-381)GTT>ATT	p.V127I		NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	127	SMB 1.|Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	TGCTGCCTGTGTTGAGCTTGG	0.413000													9	89	---	---	---	---	0	0	0.069234	0	0
SLC10A5	347051	broad.mit.edu	37	8	82606560	82606560	+	Silent	SNP	T	A	A			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr8:82606560T>A	uc011lfs.1	-	1	648	c.648A>T	c.(646-648)CCA>CCT	p.P216P		NM_001010893	NP_001010893	Q5PT55	NTCP5_HUMAN	solute carrier family 10 (sodium/bile acid	216	Helical; (Potential).					integral to membrane	bile acid:sodium symporter activity				0						CACCCCCTCCTGGGCACGTGC	0.468000													42	73	---	---	---	---	0	0	0.104719	0	0
IARS	3376	broad.mit.edu	37	9	95050407	95050407	+	Splice_Site	SNP	C	G	G			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr9:95050407C>G	uc004art.1	-	3	533	c.276_splice	c.e3+1	p.V92_splice	IARS_uc004ars.1_Splice_Site|IARS_uc004aru.3_Splice_Site_p.V92_splice|IARS_uc010mqr.2_Intron|IARS_uc010mqt.2_Intron	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase						isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	CTCAAACATACCACAGGTAAG	0.348000													3	54	---	---	---	---	0	0	0.115264	0	0
EIF1AX	1964	broad.mit.edu	37	X	20148725	20148725	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chrX:20148725G>A	uc004czt.2	-	6	546	c.338C>T	c.(337-339)GCT>GTT	p.A113V		NM_001412	NP_001403	P47813	IF1AX_HUMAN	X-linked eukaryotic translation initiation	113						cytosol	translation initiation factor activity			ovary(1)	1						ATTGATTTTAGCTAAGGACAC	0.313000													22	41	---	---	---	---	0	0	0.062417	0	0
EIF1AX	1964	broad.mit.edu	37	X	20148726	20148726	+	Splice_Site	SNP	C	A	A			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chrX:20148726C>A	uc004czt.2	-	6	546	c.338_splice	c.e6-1	p.A113_splice		NM_001412	NP_001403	P47813	IF1AX_HUMAN	X-linked eukaryotic translation initiation							cytosol	translation initiation factor activity			ovary(1)	1						TTGATTTTAGCTAAGGACACA	0.313000													21	42	---	---	---	---	6.33239e-15	7.19589e-15	0.055883	1	0
MST1P2	11209	broad.mit.edu	37	1	16974141	16974141	+	RNA	DEL	G	-	-			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr1:16974141delG	uc009vow.2	+	5		c.951delG			CROCCL1_uc001azg.1_5'Flank|CROCCL1_uc001azi.1_5'Flank|MST1P2_uc010ocg.1_RNA|MST1P2_uc010och.1_Intron|MST1P2_uc010oci.1_RNA|MST1P2_uc001azk.2_Intron|MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_Intron|MST1P2_uc001azm.3_Intron					Homo sapiens cDNA FLJ53774 complete cds, moderately similar to Hepatocyte growth factor-like protein precursor.												0						TGGCTTGGCCGGGGAGGTCAG	0.667													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	133020743	133020744	+	IGR	INS	-	T	T	rs137914230		TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr2:133020743_133020744insT								NCRNA00164 (5201 upstream) : GPR39 (153403 downstream)																							TTAGATAGCTCTTTATTGTCAT	0.327													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	56699457	56699457	+	IGR	DEL	A	-	-	rs78077053		TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr7:56699457delA								DKFZp434L192 (134480 upstream) : ZNF479 (487871 downstream)																							TTCATAGTCCAAAAAAAAAAT	0.294													3	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	101967963	101967964	+	IGR	INS	-	A	A	rs138796949	by1000genomes	TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chr7:101967963_101967964insA								SH2B2 (5786 upstream) : SPDYE6 (18229 downstream)																							TTTTTTCCCTTAAAAAAAAAAG	0.371													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	106596209	106596209	+	IGR	DEL	T	-	-			TCGA-EM-A1YA-01A-11D-A14W-08	TCGA-EM-A1YA-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	4e872b54-1efb-4071-ac86-1f53a45dd752	365c3166-e324-47d9-af32-52121df03116	g.chrX:106596209delT								CXorf41 (108737 upstream) : PRPS1 (275445 downstream)																							AATTCCCGGAttttttttttt	0.294													2	4	---	---	---	---					
