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
MAP3K6	9064	broad.mit.edu	37	1	27685202	27685202	+	Nonsense_Mutation	SNP	G	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr1:27685202G>A	uc001bny.1	-	19	2830	c.2581C>T	c.(2581-2583)CAG>TAG	p.Q861*	MAP3K6_uc009vsw.1_Nonsense_Mutation_p.Q853*|MAP3K6_uc001bnz.1_Nonsense_Mutation_p.Q384*	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	861	Protein kinase.				activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		GGTCTCACCTGAAACATGGCA	0.617000													18	45	---	---	---	---	0	0	0.006122	0	0
ASPM	259266	broad.mit.edu	37	1	197060037	197060037	+	Silent	SNP	G	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr1:197060037G>A	uc001gtu.2	-	23	9836	c.9579C>T	c.(9577-9579)CGC>CGT	p.R3193R	ASPM_uc001gtv.2_Silent_p.R1608R|ASPM_uc001gtw.3_Silent_p.R1041R	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3193	IQ 38.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GGAGAAAATGGCGCACTGCTT	0.353000													15	86	---	---	---	---	0	0	0.006122	0	0
HHAT	55733	broad.mit.edu	37	1	210591549	210591549	+	Silent	SNP	C	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr1:210591549C>T	uc009xcx.2	+	7	902	c.736C>T	c.(736-738)CTG>TTG	p.L246L	HHAT_uc010psq.1_Silent_p.L109L|HHAT_uc001hhz.3_Silent_p.L246L|HHAT_uc010psr.1_Silent_p.L247L|HHAT_uc010pss.1_Silent_p.L201L|HHAT_uc009xcy.2_Silent_p.L181L|HHAT_uc010pst.1_Silent_p.L183L|HHAT_uc010psu.1_Silent_p.L181L	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	246					multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)		TGTCCTGGCCCTGGGGCTGGG	0.567000													50	165	---	---	---	---	0	0	0.014410	0	0
LOC441666	441666	broad.mit.edu	37	10	42832213	42832213	+	RNA	SNP	T	C	C			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr10:42832213T>C	uc010qey.1	-	3		c.1762A>G				NR_024380				Homo sapiens noncoding mRNA sequence.												0						AGCTTTGACGTATTCTTGACA	0.348000													2	6	---	---	---	---	0	0	0.004672	0	0
C11orf87	399947	broad.mit.edu	37	11	109294460	109294460	+	Missense_Mutation	SNP	G	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr11:109294460G>T	uc001pkn.2	+	2	475	c.101G>T	c.(100-102)GGT>GTT	p.G34V	C11orf87_uc010rwb.1_5'Flank	NM_207645	NP_997528	Q6NUJ2	CK087_HUMAN	hypothetical protein LOC399947 precursor	34	Extracellular (Potential).					integral to membrane				ovary(2)	2						GGCAACACGGGTGCCCGCGGC	0.672000													12	32	---	---	---	---	2.27111e-07	3.15432e-07	0.013537	1	0
RPL13AP20	387841	broad.mit.edu	37	12	13028826	13028826	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr12:13028826G>A	uc010sho.1	+	1	416	c.394G>A	c.(394-396)GCA>ACA	p.A132T		NR_003932				SubName: Full=Ribosomal protein L13a variant; Flags: Fragment;												0						TCTGAAGCCTGCAAGAAAGTT	0.567000													3	12	---	---	---	---	0	0	0.004672	0	0
BRCA2	675	broad.mit.edu	37	13	32937551	32937551	+	Missense_Mutation	SNP	G	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr13:32937551G>T	uc001uub.1	+	18	8439	c.8212G>T	c.(8212-8214)GCT>TCT	p.A2738S		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2738					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TCCCCTCTTAGCTGTCTTAAA	0.458000			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			27	80	---	---	---	---	1.17739e-12	1.78393e-12	0.005443	1	0
NYNRIN	57523	broad.mit.edu	37	14	24877450	24877450	+	Silent	SNP	C	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr14:24877450C>T	uc001wpf.3	+	3	892	c.574C>T	c.(574-576)CTG>TTG	p.L192L		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	192					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						GCTGCTGAGCCTGGTGCGGGA	0.652000													6	15	---	---	---	---	0	0	0.001984	0	0
STOML1	9399	broad.mit.edu	37	15	74282792	74282792	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr15:74282792G>A	uc002awe.2	-	2	211	c.140C>T	c.(139-141)CCC>CTC	p.P47L	STOML1_uc002awf.2_Missense_Mutation_p.P47L|STOML1_uc010bje.2_Missense_Mutation_p.P47L|STOML1_uc010uld.1_Missense_Mutation_p.P5L|STOML1_uc002awh.2_Missense_Mutation_p.P47L|STOML1_uc002awg.2_Missense_Mutation_p.P47L|STOML1_uc002awi.2_5'UTR	NM_004809	NP_004800	Q9UBI4	STML1_HUMAN	stomatin (EPB72)-like 1	47						integral to membrane	sterol binding			skin(1)	1						CCAGCTCTGGGGTACATCTGC	0.582000													3	25	---	---	---	---	0	0	0.004672	0	0
ARID3B	10620	broad.mit.edu	37	15	74883967	74883967	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr15:74883967G>A	uc002aye.2	+	7	1433	c.1232G>A	c.(1231-1233)AGC>AAC	p.S411N	ARID3B_uc002ayd.2_Missense_Mutation_p.S411N|ARID3B_uc010bjs.1_Missense_Mutation_p.S116N	NM_006465	NP_006456	Q8IVW6	ARI3B_HUMAN	AT rich interactive domain 3B	411					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0						ACCTTGGCAAGCCAGCAGGCT	0.617000													8	7	---	---	---	---	0	0	0.004482	0	0
MESDC2	23184	broad.mit.edu	37	15	81282072	81282072	+	Silent	SNP	G	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr15:81282072G>A	uc002bfy.1	-	1	134	c.61C>T	c.(61-63)CTG>TTG	p.L21L	MESDC2_uc002bfx.2_RNA|MESDC2_uc010uno.1_RNA	NM_015154	NP_055969	Q14696	MESD_HUMAN	mesoderm development candidate 2	21	Chaperone domain (By similarity).				mesoderm development|protein folding|Wnt receptor signaling pathway	endoplasmic reticulum					0						agcagcagcagcagcagGTCA	0.612000													4	18	---	---	---	---	0	0	0.009096	0	0
GOLGA6L10	647042	broad.mit.edu	37	15	82635117	82635117	+	RNA	SNP	T	C	C			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	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	7	---	---	---	---	0	0	0.001168	0	0
Unknown	0	broad.mit.edu	37	15	102292726	102292726	+	Missense_Mutation	SNP	G	A	A	rs150565409	by1000genomes	TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr15:102292726G>A	uc010usj.1	+	4	373	c.314G>A	c.(313-315)GGA>GAA	p.G105E	uc002bxp.3_5'Flank|uc002bxt.2_5'Flank|uc002bxz.3_5'Flank|uc002byd.2_5'Flank|uc002bye.2_5'Flank|uc002byf.1_5'Flank|uc002byg.2_5'Flank|uc002byi.2_5'Flank|uc002byk.2_5'Flank|uc002bym.2_5'Flank|uc002byn.2_5'Flank|uc010usm.1_5'Flank					RecName: Full=Uncharacterized protein C15orf51.; Flags: Fragment;																		TGGGAACAAGGAGACACTCCT	0.582000													4	28	---	---	---	---	0	0	0.008291	0	0
Unknown	0	broad.mit.edu	37	15	102292767	102292767	+	Nonsense_Mutation	SNP	C	T	T	rs113047734	by1000genomes	TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr15:102292767C>T	uc010usj.1	+	4	414	c.355C>T	c.(355-357)CGA>TGA	p.R119*	uc002bxp.3_5'Flank|uc002bxt.2_5'Flank|uc002bxz.3_5'Flank|uc002byd.2_5'Flank|uc002bye.2_5'Flank|uc002byf.1_5'Flank|uc002byg.2_5'Flank|uc002byi.2_5'Flank|uc002byk.2_5'Flank|uc002bym.2_5'Flank|uc002byn.2_5'Flank|uc010usm.1_5'Flank					RecName: Full=Uncharacterized protein C15orf51.; Flags: Fragment;																		CACAGCGGCGCGACGAGATGC	0.597000													5	32	---	---	---	---	0	0	0.006214	0	0
PIK3R5	23533	broad.mit.edu	37	17	8789831	8789831	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr17:8789831G>A	uc002glt.2	-	13	2064	c.1997C>T	c.(1996-1998)GCC>GTC	p.A666V	PIK3R5_uc010vuz.1_Missense_Mutation_p.A666V|PIK3R5_uc002glu.3_Missense_Mutation_p.A280V	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	666	Interaction with G beta gamma proteins (By similarity).				platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CGGTCTGGCGGCAAAGCGGCA	0.662000													4	86	---	---	---	---	0	0	0.009096	0	0
KRT36	8689	broad.mit.edu	37	17	39643690	39643690	+	Silent	SNP	C	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr17:39643690C>T	uc002hwt.2	-	5	900	c.900G>A	c.(898-900)GAG>GAA	p.E300E		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	300	Rod.|Coil 2.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)				ACTGCAGCTGCTCCGAGCTGG	0.587000													7	34	---	---	---	---	0	0	0.001984	0	0
ABCA6	23460	broad.mit.edu	37	17	67102297	67102297	+	Silent	SNP	C	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr17:67102297C>A	uc002jhw.1	-	19	2620	c.2445G>T	c.(2443-2445)CTG>CTT	p.L815L	ABCA6_uc002jhx.1_Silent_p.L268L	NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	815					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					AAGAGTGAGCCAGCTCCATTT	0.413000													17	60	---	---	---	---	1.33834e-09	1.91191e-09	0.007413	1	0
SEMA6B	10501	broad.mit.edu	37	19	4552537	4552537	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr19:4552537C>T	uc010duc.1	-	9	924	c.886G>A	c.(886-888)GGA>AGA	p.G296R	SEMA6B_uc010dud.2_Missense_Mutation_p.G296R|SEMA6B_uc010xih.1_Missense_Mutation_p.G296R	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	296	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGGAGTCTCCGGGTACAGAG	0.652000													9	25	---	---	---	---	0	0	0.004482	0	0
PRKCSH	5589	broad.mit.edu	37	19	11559445	11559445	+	Splice_Site	SNP	G	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr19:11559445G>T	uc002mrt.2	+	14	1601	c.1265_splice	c.e14+1	p.E422_splice	PRKCSH_uc002mru.2_Splice_Site_p.E419_splice|PRKCSH_uc010xlz.1_Splice_Site_p.E429_splice|PRKCSH_uc010dya.2_Splice_Site_p.E204_splice|PRKCSH_uc010dyb.2_Splice_Site_p.E419_splice	NM_002743	NP_002734	P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H isoform 1						innate immune response|intracellular protein kinase cascade|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen	calcium ion binding|protein kinase C binding				0						CCACCAACGAGTGCGTCCCAG	0.617000													24	64	---	---	---	---	7.92952e-12	1.16611e-11	0.003954	1	0
NPHS1	4868	broad.mit.edu	37	19	36342241	36342241	+	Missense_Mutation	SNP	G	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr19:36342241G>T	uc002oby.2	-	3	320	c.320C>A	c.(319-321)GCG>GAG	p.A107E		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	107	Extracellular (Potential).|Ig-like C2-type 1.		A -> T (in NPHS1).|A -> V (in NPHS1).		cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTCATACTCCGCGTCATCGCT	0.642000													10	15	---	---	---	---	0.000673444	0.000886111	0.008291	1	0
ZXDC	79364	broad.mit.edu	37	3	126189759	126189759	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr3:126189759G>A	uc003eiv.2	-	4	1303	c.1249C>T	c.(1249-1251)CCG>TCG	p.P417S	ZXDC_uc010hsh.2_RNA|ZXDC_uc003eix.2_Missense_Mutation_p.P417S	NM_025112	NP_079388	Q2QGD7	ZXDC_HUMAN	ZXD family zinc finger C isoform 1	417					positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|LRR domain binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.155)		CACTCGAACGGCTTTGTGCCT	0.463000													33	89	---	---	---	---	0	0	0.007835	0	0
SENP5	205564	broad.mit.edu	37	3	196612456	196612456	+	Missense_Mutation	SNP	A	G	G			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr3:196612456A>G	uc003fwz.3	+	2	653	c.404A>G	c.(403-405)AAT>AGT	p.N135S	SENP5_uc011bty.1_Missense_Mutation_p.N135S	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	135					cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		AGAGAGAAAAATCTCTTGAAG	0.443000													21	58	---	---	---	---	0	0	0.002780	0	0
ZNF311	282890	broad.mit.edu	37	6	28963566	28963566	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr6:28963566G>A	uc003nlu.2	-	7	1726	c.1213C>T	c.(1213-1215)CAC>TAC	p.H405Y	ZNF311_uc011dlk.1_Missense_Mutation_p.H313Y|ZNF311_uc003nlv.2_Missense_Mutation_p.H313Y	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	405	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						ATTCTTATGTGTTTGGTGAGG	0.512000													12	40	---	---	---	---	0	0	0.010729	0	0
ZBTB22	9278	broad.mit.edu	37	6	33282984	33282984	+	Silent	SNP	G	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr6:33282984G>A	uc003oeb.2	-	2	1862	c.1710C>T	c.(1708-1710)GGC>GGT	p.G570G	TAPBP_uc003odx.1_5'Flank|TAPBP_uc010jus.1_5'Flank|TAPBP_uc003ody.2_5'Flank|TAPBP_uc003odz.2_5'Flank|TAPBP_uc010jut.1_5'Flank|TAPBP_uc011drc.1_5'Flank|ZBTB22_uc010juu.2_Silent_p.G570G	NM_005453	NP_005444	O15209	ZBT22_HUMAN	zinc finger and BTB domain containing 22	570					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCCCGACCCCGCCCAGGCGGT	0.687000													18	62	---	---	---	---	0	0	0.007413	0	0
POM121L12	285877	broad.mit.edu	37	7	53104067	53104067	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr7:53104067C>T	uc003tpz.2	+	1	719	c.703C>T	c.(703-705)CCT>TCT	p.P235S		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	235											0						CAGGCCAGGGCCTCTGAAGCC	0.642000													19	69	---	---	---	---	0	0	0.008871	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	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				25	65	---	---	---	---	0	0	0.003954	0	0
LONRF1	91694	broad.mit.edu	37	8	12580704	12580704	+	Silent	SNP	T	C	C			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr8:12580704T>C	uc003wwd.1	-	12	2286	c.2223A>G	c.(2221-2223)CCA>CCG	p.P741P	LONRF1_uc011kxv.1_Silent_p.P330P|LONRF1_uc010lsp.1_Silent_p.P341P	NM_152271	NP_689484	Q17RB8	LONF1_HUMAN	LON peptidase N-terminal domain and ring finger	741	Lon.				proteolysis		ATP-dependent peptidase activity|zinc ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(644;0.236)		GCTGGTATCGTGGGTCTACAG	0.418000													46	135	---	---	---	---	0	0	0.014410	0	0
ALDH1B1	219	broad.mit.edu	37	9	38396762	38396762	+	Silent	SNP	C	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr9:38396762C>T	uc004aay.2	+	2	1129	c.1017C>T	c.(1015-1017)ACC>ACT	p.T339T		NM_000692	NP_000683	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1B1 precursor	339					carbohydrate metabolic process	mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity			skin(1)	1				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)	NADH(DB00157)	TCGAGAGAACCGTGGAGAAAG	0.557000													26	42	---	---	---	---	0	0	0.005443	0	0
NHS	4810	broad.mit.edu	37	X	17742462	17742462	+	Silent	SNP	T	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chrX:17742462T>A	uc004cxx.2	+	5	1427	c.1089T>A	c.(1087-1089)GTT>GTA	p.V363V	NHS_uc011mix.1_Silent_p.V384V|NHS_uc004cxy.2_Silent_p.V207V|NHS_uc004cxz.2_Silent_p.V186V|NHS_uc004cya.2_Silent_p.V86V	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	363						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					GCTCTCTGGTTCATTCACAAT	0.423000													40	120	---	---	---	---	0	0	0.008740	0	0
USP9X	8239	broad.mit.edu	37	X	41075213	41075213	+	Missense_Mutation	SNP	A	C	C			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chrX:41075213A>C	uc004dfb.2	+	35	6026	c.5393A>C	c.(5392-5394)AAG>ACG	p.K1798T	USP9X_uc004dfc.2_Missense_Mutation_p.K1798T	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1798					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						ATACAACTAAAGCGATTTGAC	0.363000													35	70	---	---	---	---	0	0	0.004289	0	0
NGFRAP1	27018	broad.mit.edu	37	X	102632483	102632483	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chrX:102632483C>T	uc004eki.2	+	3	446	c.64C>T	c.(64-66)CGC>TGC	p.R22C	NGFRAP1_uc004ekh.2_Missense_Mutation_p.R12C|NGFRAP1_uc004ekj.1_Missense_Mutation_p.R22C	NM_206915	NP_996798	Q00994	BEX3_HUMAN	nerve growth factor receptor (TNFRSF16)	22					apoptosis|multicellular organismal development|nerve growth factor receptor signaling pathway	cytosol|nucleus	caspase regulator activity|metal ion binding				0						AGAGGAAGACCGCCCTTTGGG	0.498000													66	251	---	---	---	---	0	0	0.014410	0	0
ZNHIT6	54680	broad.mit.edu	37	1	86171801	86171801	+	Frame_Shift_Del	DEL	G	-	-			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr1:86171801delG	uc001dlh.2	-	4	1009	c.875delC	c.(874-876)TCTfs	p.S292fs	ZNHIT6_uc010osc.1_Frame_Shift_Del_p.S253fs	NM_017953	NP_060423	Q9NWK9	BCD1_HUMAN	zinc finger, HIT type 6	292					box C/D snoRNP assembly|ribosome biogenesis	pre-snoRNP complex	identical protein binding|metal ion binding			large_intestine(1)	1						AGCATCTCTAGAAATATGGTC	0.313													23	37	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	99068839	99068840	+	IGR	INS	-	T	T			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr10:99068839_99068840insT								ARHGAP19 (16426 upstream) : FRAT1 (10182 downstream)																							AAAAAAGTTTGTTTTTTTTTTT	0.173													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	20416848	20416849	+	IGR	INS	-	A	A			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr17:20416848_20416849insA								LGALS9B (46000 upstream) : CCDC144NL (349861 downstream)																							CAGGCTGAAAGAAAAAAAAAAA	0.554													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	25289230	25289233	+	IGR	DEL	TCTA	-	-	rs138697975		TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr17:25289230_25289233delTCTA								None (None upstream) : WSB1 (331873 downstream)																							GTTTGTTACCTCTATCTATTGACT	0.343													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	18	11610674	11610675	+	IGR	INS	-	CA	CA			TCGA-EL-A3H5-01A-11D-A202-08	TCGA-EL-A3H5-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	20eacd64-1c18-4928-bcb8-928e274504c8	56cb03e6-10a4-4498-9ef4-ec579fe18ace	g.chr18:11610674_11610675insCA								FAM38B (908695 upstream) : GNAL (78461 downstream)																							AGACTGAAGACaaaaaaaaaaa	0.302													2	4	---	---	---	---					
