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	init_n_lod
TTF2	8458	broad.mit.edu	37	1	117618069	117618069	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr1:117618069G>T	uc001egy.2	+	5	883	c.863G>T	c.(862-864)TGG>TTG	p.W288L	TTF2_uc001egx.1_Missense_Mutation_p.W288L	NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	288					mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		TACACGAACTGGGAGGCTAAA	0.522000													4	70					0.00909568	0.00963072	0.009096	1	0	
IQGAP3	128239	broad.mit.edu	37	1	156510514	156510514	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr1:156510514G>A	uc001fpf.2	-	23	2800	c.2725C>T	c.(2725-2727)CGG>TGG	p.R909W		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	909					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGAGTGATCCGGTTCTTCACC	0.537000													4	56					0	0	0.009096	0	0	
OR10K1	391109	broad.mit.edu	37	1	158435617	158435617	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr1:158435617A>C	uc010pij.1	+	1	266	c.266A>C	c.(265-267)AAG>ACG	p.K89T		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CTGTCCCAGAAGAAGACCATT	0.488000													9	161					0	0	0.004482	0	0	
SPTA1	6708	broad.mit.edu	37	1	158622374	158622374	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr1:158622374T>A	uc001fst.1	-	23	3457	c.3258A>T	c.(3256-3258)TTA>TTT	p.L1086F		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1086	Spectrin 11.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CATAGGCCAATAAAAATTCAT	0.438000													6	96					0	0	0.001984	0	0	
REN	5972	broad.mit.edu	37	1	204124212	204124212	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr1:204124212A>T	uc001haq.2	-	10	1197	c.1153T>A	c.(1153-1155)TTC>ATC	p.F385I	ETNK2_uc001hao.3_5'Flank|ETNK2_uc001han.3_5'Flank|ETNK2_uc010pqs.1_5'Flank|ETNK2_uc010pqt.1_5'Flank	NM_000537	NP_000528	P00797	RENI_HUMAN	renin preproprotein	385					angiotensin maturation|regulation of MAPKKK cascade	extracellular space|membrane	aspartic-type endopeptidase activity			skin(3)|central_nervous_system(1)	4	all_cancers(21;0.00965)|Breast(84;0.116)|all_epithelial(62;0.157)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)		Aliskiren(DB01258)|Remikiren(DB00212)	TTTCGGATGAAGGTGGCCCCC	0.607000													6	48					0	0	0.001168	0	0	
TECTA	7007	broad.mit.edu	37	11	120996063	120996063	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr11:120996063A>C	uc010rzo.1	+	7	1256	c.1256A>C	c.(1255-1257)AAA>ACA	p.K419T		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	419	VWFD 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GGGACAGTGAAAATCTACCAG	0.502000													11	197					0	0	0.008291	0	0	
KCNA5	3741	broad.mit.edu	37	12	5153813	5153813	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr12:5153813G>A	uc001qni.2	+	1	729	c.500G>A	c.(499-501)CGC>CAC	p.R167H		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	167						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						TTCTTCGACCGCAACCGGCCC	0.657000													5	82					0	0	0.014758	0	0	
DGKA	1606	broad.mit.edu	37	12	56346685	56346685	+	Silent	SNP	C	T	T	rs150840309	byFrequency	TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr12:56346685C>T	uc001sij.2	+	21	2175	c.1911C>T	c.(1909-1911)ACC>ACT	p.T637T	DGKA_uc009zod.1_Silent_p.T556T|DGKA_uc001sik.2_Silent_p.T637T|DGKA_uc001sil.2_Silent_p.T637T|DGKA_uc001sim.2_Silent_p.T637T|DGKA_uc001sin.2_Silent_p.T637T|DGKA_uc009zof.2_Silent_p.T283T|DGKA_uc001sio.2_Silent_p.T379T	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	637					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	AAGTCATCACCGACCCTGATA	0.552000													6	149					0	0	0.001168	0	0	
PCK2	5106	broad.mit.edu	37	14	24566314	24566314	+	Silent	SNP	C	T	T			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr14:24566314C>T	uc001wlt.2	+	2	375	c.243C>T	c.(241-243)GGC>GGT	p.G81G	NRL_uc001wlp.2_5'Flank|NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Silent_p.G93G|PCK2_uc001wls.2_Silent_p.G81G|PCK2_uc010tnw.1_Intron|PCK2_uc010ald.2_5'UTR|PCK2_uc010ale.2_5'UTR|PCK2_uc010tnx.1_5'UTR|PCK2_uc001wlu.3_5'UTR	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	81					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		AGCAGCAGGGCCTCATCCGAA	0.557000													6	78					0	0	0.001168	0	0	
RRN3P1	730092	broad.mit.edu	37	16	21817457	21817457	+	Silent	SNP	G	A	A	rs150520281	by1000genomes	TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr16:21817457G>A	uc010vbl.1	-	7	603	c.106C>T	c.(106-108)CTG>TTG	p.L36L	uc002diq.3_Intron	NR_003370				SubName: Full=Putative uncharacterized protein ENSP00000219758;												0						CTTACATCCAGCTTGAGTAGT	0.254000													4	18					0	0	0.001984	0	0	
PLEKHG4	25894	broad.mit.edu	37	16	67321852	67321852	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr16:67321852G>A	uc002eso.3	+	18	5690	c.3155G>A	c.(3154-3156)CGA>CAA	p.R1052Q	PLEKHG4_uc002esp.3_Missense_Mutation_p.R859Q|PLEKHG4_uc002esq.3_Missense_Mutation_p.R1052Q|PLEKHG4_uc010cef.2_Missense_Mutation_p.R1052Q|PLEKHG4_uc002ess.3_Missense_Mutation_p.R1052Q|PLEKHG4_uc010ceg.2_Missense_Mutation_p.R971Q	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	1052					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		AAGGCCTTCCGAGACATTGCT	0.587000													5	92					0	0	0.001168	0	0	
CDH1	999	broad.mit.edu	37	16	68844172	68844172	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr16:68844172G>T	uc002ewg.1	+	6	884	c.760G>T	c.(760-762)GAT>TAT	p.D254Y	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.D254Y	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	254	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.?(2)|p.D254fs*9(1)|p.D254H(1)|p.D254Y(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		CACGGTAACCGATCAGAATGA	0.468000			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				11	143					4.3838e-07	5.09087e-07	0.016723	1	0	
GUCY2D	3000	broad.mit.edu	37	17	7907247	7907247	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr17:7907247G>A	uc002gjt.2	+	3	873	c.799G>A	c.(799-801)GGC>AGC	p.G267S		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	267	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				AGAGGAGCTGGGCCTGACCGA	0.667000													5	93					0	0	0.001168	0	0	
Unknown	0	broad.mit.edu	37	17	21731144	21731144	+	Missense_Mutation	SNP	T	G	G	rs149119138	by1000genomes	TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr17:21731144T>G	uc002gyy.3	+	2	571	c.446T>G	c.(445-447)CTG>CGG	p.L149R						SubName: Full=cDNA FLJ51326, highly similar to Homo sapiens ubiquitin B (UBB), mRNA;																		GTCCTGCGTCTGAGAGGTGGT	0.542000													5	75					0	0	0.001168	0	0	
CATSPERG	57828	broad.mit.edu	37	19	38851392	38851392	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr19:38851392C>G	uc002oih.3	+	16	1876	c.1789C>G	c.(1789-1791)CAG>GAG	p.Q597E	CATSPERG_uc002oig.3_Missense_Mutation_p.Q557E|CATSPERG_uc002oif.3_Missense_Mutation_p.Q237E|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	597	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						TATGAACAACCAGAAGGGCCA	0.612000													3	34					0	0	0.004672	0	0	
TTN	7273	broad.mit.edu	37	2	179613105	179613105	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr2:179613105T>A	uc002unb.2	-	46	14246	c.14022A>T	c.(14020-14022)CAA>CAT	p.Q4674H	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGAAATTTCTTGACTGGCAA	0.328000													7	115					0	0	0.006214	0	0	
PDCD1	5133	broad.mit.edu	37	2	242794903	242794903	+	Silent	SNP	G	A	A	rs55637807		TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr2:242794903G>A	uc002wcq.3	-	2	374	c.306C>T	c.(304-306)AAC>AAT	p.N102N	PDCD1_uc010fzs.2_Silent_p.N33N|PDCD1_uc010fzt.2_Intron	NM_005018	NP_005009	Q15116	PDCD1_HUMAN	programmed cell death 1 precursor	102	Ig-like V-type.|Extracellular (Potential).				apoptosis|humoral immune response|multicellular organismal development|T cell costimulation	integral to membrane	protein tyrosine phosphatase activity|signal transducer activity			ovary(1)	1		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0219)		AGTCACGCCCGTTGGGCAGTT	0.672000													4	66					0	0	0.009096	0	0	
RHOA	387	broad.mit.edu	37	3	49405959	49405959	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr3:49405959G>T	uc003cwu.2	-	3	455	c.179C>A	c.(178-180)ACA>AAA	p.T60K	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	60	GTP (By similarity).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	CTGCCCAGCTGTGTCCCACAA	0.468000													11	91					0.00185496	0.00208683	0.016723	1	0	
SLIT2	9353	broad.mit.edu	37	4	20618693	20618693	+	Silent	SNP	C	T	T			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr4:20618693C>T	uc003gpr.1	+	35	4212	c.4008C>T	c.(4006-4008)TGC>TGT	p.C1336C	SLIT2_uc003gps.1_Silent_p.C1328C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1336	EGF-like 7.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GTGAGCCATGCCACAAGAAGG	0.592000													4	63					0	0	0.009096	0	0	
PCDHA3	56145	broad.mit.edu	37	5	140182645	140182645	+	Silent	SNP	G	A	A			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr5:140182645G>A	uc003lhf.2	+	1	1863	c.1863G>A	c.(1861-1863)CCG>CCA	p.P621P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.P621P	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	621	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGCATCCCGTTTCGCGTGG	0.667000													7	91					0	0	0.003080	0	0	
DNAH11	8701	broad.mit.edu	37	7	21908603	21908603	+	Silent	SNP	C	T	T			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr7:21908603C>T	uc003svc.2	+	74	12013	c.11982C>T	c.(11980-11982)ATC>ATT	p.I3994I		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3994	AAA 6 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ACTGGGTCATCCTCCAAGTGA	0.527000									Kartagener_syndrome				3	35					0	0	0.004672	0	0	
TXNDC3	51314	broad.mit.edu	37	7	37927910	37927910	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr7:37927910C>T	uc003tfn.2	+	15	1651	c.1279C>T	c.(1279-1281)CCG>TCG	p.P427S		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	427	NDK 2.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						GGACAGTTTGCCGGTCAACCA	0.368000									Kartagener_syndrome				4	64					0	0	0.001168	0	0	
POM121L12	285877	broad.mit.edu	37	7	53104090	53104090	+	Silent	SNP	C	A	A			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr7:53104090C>A	uc003tpz.2	+	1	742	c.726C>A	c.(724-726)CCC>CCA	p.P242P		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	242											0						GCCTCGGCCCCTGGAGCCTCA	0.647000													7	64					0.00198382	0.00216417	0.001984	1	0	
CA8	767	broad.mit.edu	37	8	61192405	61192405	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr8:61192405A>T	uc003xtz.1	-	2	383	c.135T>A	c.(133-135)AAT>AAA	p.N45K	CA8_uc003xua.1_Missense_Mutation_p.N45K|CA8_uc003xub.2_Missense_Mutation_p.N45K	NM_004056	NP_004047	P35219	CAH8_HUMAN	carbonic anhydrase VIII	45					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0		all_cancers(86;0.172)|all_epithelial(80;0.0383)|all_lung(136;0.0413)|Lung NSC(129;0.0474)				GGTATTCCCCATTAGCATCAG	0.398000													3	31					0	0	0.004672	0	0	
HAS2	3037	broad.mit.edu	37	8	122627197	122627197	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr8:122627197G>A	uc003yph.2	-	4	1349	c.811C>T	c.(811-813)CAG>TAG	p.Q271*		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	271	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			AAATAAGACTGACAGGCCCTT	0.383000													8	96					0	0	0.004482	0	0	
Unknown	0	broad.mit.edu	37	9	21278255	21278255	+	RNA	SNP	A	G	G	rs75677164	byFrequency	TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr9:21278255A>G	uc003zou.1	-	1		c.308T>C								Messenger RNA for human leukocyte (alpha) interferon.																		TACATCACACAGGCTTCCAGG	0.453000													6	120					0	0	0.001168	0	0	
DBC1	1620	broad.mit.edu	37	9	121930039	121930039	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr9:121930039A>C	uc004bkc.2	-	8	2065	c.1609T>G	c.(1609-1611)TTC>GTC	p.F537V		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	537					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						ATGTGGATGAAGTCCATGCGG	0.557000													5	57					0	0	0.014758	0	0	
TOR2A	27433	broad.mit.edu	37	9	130496702	130496702	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chr9:130496702C>T	uc004brs.3	-	2	348	c.293G>A	c.(292-294)GGC>GAC	p.G98D	TOR2A_uc004brt.3_Missense_Mutation_p.G98D|TOR2A_uc004brw.3_Missense_Mutation_p.G98D|TOR2A_uc011maj.1_Intron|TOR2A_uc004bru.3_Intron|TOR2A_uc004brv.3_Intron|TOR2A_uc004brx.1_5'UTR	NM_001085347	NP_001078816	Q5JU69	TOR2A_HUMAN	torsin family 2, member A isoform a	98	ATP (Potential).				chaperone mediated protein folding requiring cofactor	endoplasmic reticulum|extracellular region	ATP binding|nucleoside-triphosphatase activity				0						ATAGGATTTGCCGGTGCCGGT	0.682000											OREG0019509	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	33					0	0	0.004672	0	0	
DDX53	168400	broad.mit.edu	37	X	23019989	23019989	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chrX:23019989G>C	uc004daj.2	+	1	1903	c.1815G>C	c.(1813-1815)AAG>AAC	p.K605N		NM_182699	NP_874358	Q86TM3	DDX53_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 53	605						nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			large_intestine(1)|ovary(1)|kidney(1)	3						AGCAATACAAGTTAAATCAAC	0.388000													4	37					0	0	0.009096	0	0	
GNL3L	54552	broad.mit.edu	37	X	54578096	54578096	+	Missense_Mutation	SNP	G	A	A	rs2298284	by1000genomes	TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chrX:54578096G>A	uc004dth.1	+	11	1098	c.959G>A	c.(958-960)CGT>CAT	p.R320H	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	320	G.				ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						ACCATCCTGCGTAACTGCGTC	0.617000													4	29					0	0	0.014758	0	0	
LOC442459	442459	broad.mit.edu	37	X	98974756	98974756	+	RNA	SNP	A	C	C			TCGA-BR-A4IV-01A-31D-A25D-08	TCGA-BR-A4IV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	a6f063a8-b76c-4c9b-b9fa-aafd37feb4e5	ad1fb261-9956-4218-91ec-10b02a3f9ba5	g.chrX:98974756A>C	uc011mrd.1	-	8		c.1587T>G				NR_024608				Homo sapiens DNA repair protein mRNA, complete cds.												0						CTGTATGTGAAGCAGAGCTTC	0.483000													4	18					0	0	0.014758	0	0	
