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
Unknown	0	broad.mit.edu	37	10	27577615	27577615	+	RNA	SNP	T	G	G	rs11015640	by1000genomes	TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr10:27577615T>G	uc001itt.1	+	4		c.505T>G								Homo sapiens cDNA FLJ43247 fis, clone HEART2000611.																		GGAAGAGTGCTGAAAAGATTG	0.423000													3	36	---	---	---	---	0	0	0.115264	0	0
LOC650368	650368	broad.mit.edu	37	11	3427845	3427845	+	RNA	SNP	C	T	T			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr11:3427845C>T	uc010qxs.1	+	9		c.838C>T			LOC650368_uc001lxx.2_RNA|LOC650368_uc001lxy.2_RNA	NR_024248				Homo sapiens cDNA FLJ41654 fis, clone FEBRA2025463, weakly  similar to Homo sapiens HMT-1 mRNA for beta-1,4 mannosyltransferase.												0						CTTCAAGTGGCAGGAGCAGAA	0.587000													5	33	---	---	---	---	0	0	0.184627	0	0
FNBP4	23360	broad.mit.edu	37	11	47744665	47744665	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr11:47744665G>A	uc009ylv.2	-	15	2821	c.2668C>T	c.(2668-2670)CCA>TCA	p.P890S	FNBP4_uc001ngi.2_Missense_Mutation_p.P204S|FNBP4_uc001ngj.2_Missense_Mutation_p.P797S	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	890										ovary(1)	1						GCCTGAACTGGCTGCAATGAG	0.408000													3	39	---	---	---	---	0	0	0.115264	0	0
Unknown	0	broad.mit.edu	37	12	24736761	24736761	+	RNA	SNP	G	C	C	rs139293562		TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr12:24736761G>C	uc001rgb.1	-	1		c.342C>G								Homo sapiens cDNA FLJ32894 fis, clone TESTI2004994.																		GGAGGGAGACGCCCTCCCAAG	0.562000													4	30	---	---	---	---	0	0	0.361761	0	0
SEC23A	10484	broad.mit.edu	37	14	39560843	39560843	+	Silent	SNP	C	T	T			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr14:39560843C>T	uc001wup.1	-	5	664	c.441G>A	c.(439-441)CTG>CTA	p.L147L	SEC23A_uc010tqa.1_Silent_p.L9L|SEC23A_uc010tqb.1_Silent_p.L118L|SEC23A_uc010tqc.1_Silent_p.L9L	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	147					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		TGGATTCTTTCAGGGCTTGTA	0.383000													6	76	---	---	---	---	0	0	0.248553	0	0
Unknown	0	broad.mit.edu	37	16	32265022	32265022	+	RNA	SNP	G	C	C	rs149357881	by1000genomes	TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr16:32265022G>C	uc002ecy.2	+	1		c.379G>C			uc010cav.1_RNA					Homo sapiens mRNA for TP53TG3b, complete cds.																		CTGCCTCCGCGGCAGGGTTGT	0.607000													4	50	---	---	---	---	0	0	0.150653	0	0
INPP5K	51763	broad.mit.edu	37	17	1400056	1400056	+	Silent	SNP	G	C	C			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr17:1400056G>C	uc002fsr.2	-	9	1394	c.1005C>G	c.(1003-1005)CCC>CCG	p.P335P	INPP5K_uc002fss.2_Silent_p.P259P|INPP5K_uc002fsq.2_Silent_p.P259P|INPP5K_uc010cjr.2_Silent_p.P259P|INPP5K_uc010vql.1_Silent_p.P243P|INPP5K_uc010vqm.1_Silent_p.P239P	NM_016532	NP_057616	Q9BT40	INP5K_HUMAN	inositol polyphosphate-5-phosphatase K isoform	335	Required for ruffle localization.				actin cytoskeleton organization	cytosol|endoplasmic reticulum|membrane fraction|neuron projection|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol bisphosphate phosphatase activity|inositol bisphosphate phosphatase activity|inositol trisphosphate phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|lipid phosphatase activity|protein binding				0						ACAGGTCCTCGGGCATCAGGA	0.582000													3	43	---	---	---	---	0	0	0.115264	0	0
MSX2P1	55545	broad.mit.edu	37	17	56235104	56235104	+	RNA	SNP	C	A	A	rs3863503	by1000genomes	TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr17:56235104C>A	uc002ivn.2	+	1		c.785C>A				NR_002307				Homo sapiens msh homeobox 2 pseudogene 1 (MSX2P1), non-coding RNA.												0						CCTGTGCTTCCCATCCCGCCC	0.552000													4	86	---	---	---	---	0.000602214	0.000669127	0.184627	1	0
HELZ	9931	broad.mit.edu	37	17	65186416	65186416	+	Missense_Mutation	SNP	G	C	C			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr17:65186416G>C	uc010wqk.1	-	10	800	c.613C>G	c.(613-615)CAG>GAG	p.Q205E	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.Q205E	NM_014877	NP_055692			helicase with zinc finger domain									p.Q205*(1)		ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					AGTTCTTCCTGGGAATGTGCT	0.378000													3	44	---	---	---	---	0	0	0.115264	0	0
RPL23AP7	118433	broad.mit.edu	37	2	114369771	114369771	+	RNA	SNP	C	T	T	rs145906086		TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr2:114369771C>T	uc010yxy.1	-	4		c.527G>A			RPL23AP7_uc002tkk.2_RNA|RPL23AP7_uc010yxz.1_RNA	NR_024528				Homo sapiens ribosomal protein L23a pseudogene 7, mRNA (cDNA clone IMAGE:3346366).												0						TTAAAGCCTTCGCTTTGGCTT	0.473000													5	43	---	---	---	---	0	0	0.307466	0	0
PCDHB18	54660	broad.mit.edu	37	5	140615861	140615861	+	Missense_Mutation	SNP	G	A	A	rs6871453	by1000genomes	TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr5:140615861G>A	uc003ljc.1	+	1	1924	c.1576G>A	c.(1576-1578)GCG>ACG	p.A526T		NR_001281				SubName: Full=Similar to protocadherin-3 (Pcdh3);											ovary(1)	1						GGTACCTCGGGCGGCCGAGCC	0.701000													4	80	---	---	---	---	0	0	0.150653	0	0
SHROOM2	357	broad.mit.edu	37	X	9914880	9914880	+	Missense_Mutation	SNP	T	C	C			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chrX:9914880T>C	uc004csu.1	+	10	4844	c.4754T>C	c.(4753-4755)CTC>CCC	p.L1585P	SHROOM2_uc004csv.2_Missense_Mutation_p.L419P|SHROOM2_uc011mic.1_Missense_Mutation_p.L420P|SHROOM2_uc004csw.1_Missense_Mutation_p.L420P	NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	1585	ASD2.				apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				AAGTCGGCCCTCATCATCGAG	0.542000													2	9	---	---	---	---	0	0	0.115264	0	0
Unknown	0	broad.mit.edu	37	1	31580928	31580928	+	IGR	DEL	T	-	-			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr1:31580928delT								PUM1 (42165 upstream) : NKAIN1 (71665 downstream)																							TTTCATTTCCTTTTTTTTTTT	0.333													2	4	---	---	---	---					
PABPC3	5042	broad.mit.edu	37	13	25671273	25671273	+	Frame_Shift_Del	DEL	G	-	-			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr13:25671273delG	uc001upy.2	+	1	998	c.937delG	c.(937-939)GCGfs	p.A313fs		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	313	RRM 4.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		TCTCCGGAAAGCGTTTTCTCC	0.408													10	271	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	91924711	91924712	+	IGR	INS	-	GGTCTGAGAA	GGTCTGAGAA	rs60861855		TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr2:91924711_91924712insGGTCTGAGAA								LOC654342 (76736 upstream) : GGT8P (38656 downstream)																							CTTTGCATTTTGTAAGTGAGCA	0.470													7	27	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	20229948	20229949	+	IGR	INS	-	A	A	rs139419884	by1000genomes	TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr21:20229948_20229949insA								TMPRSS15 (453978 upstream) : None (None downstream)																							aagatctgcataaaaaaacaag	0.099													6	8	---	---	---	---					
SREBF2	6721	broad.mit.edu	37	22	42262949	42262951	+	In_Frame_Del	DEL	GCA	-	-			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr22:42262949_42262951delGCA	uc003bbi.2	+	2	372_374	c.203_205delGCA	c.(202-207)GGCAGC>GGC	p.S74del	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	74	Gly/Pro/Ser-rich.|Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						ggcagcagtggcagcagcagcag	0.365													9	119	---	---	---	---					
Unknown	0	broad.mit.edu	37	4	46725774	46725774	+	IGR	DEL	T	-	-			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr4:46725774delT								GABRA2 (333353 upstream) : COX7B2 (11075 downstream)																							tttttcttggttttttttttt	0.343													3	6	---	---	---	---					
CETN3	1070	broad.mit.edu	37	5	89705712	89705712	+	5'Flank	DEL	A	-	-			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr5:89705712delA	uc003kjo.2	-							NM_004365	NP_004356	O15182	CETN3_HUMAN	centrin 3						cell division|centrosome cycle|mitosis	centriole	calcium ion binding				0		all_cancers(142;7.93e-09)|all_epithelial(76;2.13e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.42e-32)|Epithelial(54;1.45e-26)|all cancers(79;2.87e-23)		TCAATCAAGGAAAAAAAAATT	0.502													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	5	180708776	180708777	+	IGR	INS	-	G	G	rs140221514		TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chr5:180708776_180708777insG								TRIM52 (20657 upstream) : None (None downstream)																							gggcggtaggagggggctggag	0.144													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	71492424	71492424	+	IGR	DEL	A	-	-			TCGA-EL-A3CY-01A-11D-A19J-08	TCGA-EL-A3CY-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	6aedde6d-6dae-43be-a849-e10ae19350f8	9f6ea3d3-c570-4a1a-806f-4ce2d3304f72	g.chrX:71492424delA								PIN4 (7612 upstream) : RPS4X (30 downstream)																							AAACTGAATTAAAAAAAAAAA	0.383													3	4	---	---	---	---					
