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
NRAS	4893	broad.mit.edu	37	1	115256529	115256529	+	Missense_Mutation	SNP	T	C	C	rs11554290		TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr1:115256529T>C	uc009wgu.2	-	3	436	c.182A>G	c.(181-183)CAA>CGA	p.Q61R		NM_002524	NP_002515	P01111	RASN_HUMAN	neuroblastoma RAS viral (v-ras) oncogene homolog	61	GTP.		Q -> K (in neuroblastoma cell).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	Golgi membrane|plasma membrane	GTP binding|GTPase activity	p.Q61R(757)|p.Q61K(537)|p.Q61L(147)|p.Q61H(95)|p.Q61P(21)|p.Q61E(9)|p.Q61?(4)|p.Q61Q(3)|p.Q61_E62>HK(1)		haematopoietic_and_lymphoid_tissue(1008)|skin(956)|thyroid(334)|large_intestine(62)|NS(60)|soft_tissue(32)|lung(31)|upper_aerodigestive_tract(25)|urinary_tract(12)|liver(10)|adrenal_gland(9)|autonomic_ganglia(8)|testis(8)|central_nervous_system(8)|prostate(8)|breast(7)|biliary_tract(6)|ovary(6)|stomach(5)|pancreas(5)|endometrium(2)|kidney(2)|cervix(2)|eye(1)	2607	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTACTCTTCTTGTCCAGCTGT	0.458000	Q61L(HEPG2_LIVER)|Q61R(SKMEL2_SKIN)|Q61R(KMS27_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(IPC298_SKIN)|Q61P(TF1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(MHHES1_BONE)|Q61R(HT1197_URINARY_TRACT)|Q61L(MELJUSO_SKIN)|Q61R(ONS76_CENTRAL_NERVOUS_SYSTEM)|Q61R(KU1919_URINARY_TRACT)|Q61L(C3A_LIVER)|Q61R(TT2609C02_THYROID)|Q61R(NCIH2347_LUNG)|Q61L(KMS21BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(OCIAML3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61R(SW1271_LUNG)|Q61L(HL60_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(MOLP8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	50	Mis		melanoma|MM|AML|thyroid				Noonan_syndrome	TSP Lung(23;0.16)|Multiple Myeloma(1;<1E-6)			95	118	---	---	---	---	0	0	0.014410	0	0
LOC642826	642826	broad.mit.edu	37	10	47207813	47207813	+	RNA	SNP	T	C	C			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr10:47207813T>C	uc001jei.2	-	12		c.1586A>G			uc009xnf.2_Missense_Mutation_p.H132R					Homo sapiens cDNA, FLJ99065.												0						TTTACTTACATGGTTTGTACA	0.294000													4	51	---	---	---	---	0	0	0.009096	0	0
XPOT	11260	broad.mit.edu	37	12	64812808	64812808	+	Silent	SNP	C	G	G			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr12:64812808C>G	uc001ssb.2	+	6	849	c.423C>G	c.(421-423)CTC>CTG	p.L141L	XPOT_uc009zqm.1_Silent_p.L51L	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	141	Necessary for interaction with Ran, nuclear localization and nuclear import.				intracellular protein transport|tRNA export from nucleus	cytoplasm|nucleoplasm	protein transporter activity|tRNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(28;0.0404)		GAGTAGATCTCTACCTGCGAA	0.398000													4	147	---	---	---	---	0	0	0.000602	0	0
AMDHD1	144193	broad.mit.edu	37	12	96354366	96354366	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr12:96354366C>T	uc001tel.1	+	5	884	c.778C>T	c.(778-780)CAT>TAT	p.H260Y	AMDHD1_uc009zth.1_Missense_Mutation_p.H151Y	NM_152435	NP_689648	Q96NU7	HUTI_HUMAN	amidohydrolase domain containing 1	260		Zinc or iron (By similarity).			histidine catabolic process to glutamate and formamide	cytosol	imidazolonepropionase activity|metal ion binding			central_nervous_system(1)	1						GATTAACTTCCATGGGGATGA	0.423000													11	125	---	---	---	---	0	0	0.013537	0	0
Unknown	0	broad.mit.edu	37	15	20170018	20170018	+	IGR	SNP	C	G	G	rs140304162	by1000genomes	TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr15:20170018C>G								None (None upstream) : GOLGA6L6 (567076 downstream)																							GGTGACTCTGCCCTGGAACTT	0.547000													3	230	---	---	---	---	0	0	0.009096	0	0
IQGAP1	8826	broad.mit.edu	37	15	91016984	91016984	+	Missense_Mutation	SNP	A	G	G			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr15:91016984A>G	uc002bpl.1	+	20	2488	c.2387A>G	c.(2386-2388)CAA>CGA	p.Q796R		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	796	IQ 2.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			AAGGCATATCAAGATCGGTTA	0.423000													3	56	---	---	---	---	0	0	0.004672	0	0
WRAP53	55135	broad.mit.edu	37	17	7604998	7604998	+	Silent	SNP	G	A	A	rs34740153		TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr17:7604998G>A	uc010vuh.1	+	7	1001	c.846G>A	c.(844-846)TCG>TCA	p.S282S	WRAP53_uc010vui.1_Silent_p.S282S|WRAP53_uc002gip.2_Silent_p.S282S|WRAP53_uc002gir.2_Silent_p.S282S|WRAP53_uc002giq.2_RNA|WRAP53_uc010cnl.2_Silent_p.S249S|WRAP53_uc010vuj.1_Silent_p.S63S	NM_001143990	NP_001137462	Q9BUR4	WAP53_HUMAN	WD repeat domain 79 isoform 2	282	WD 3.				positive regulation of telomerase activity|telomere formation via telomerase	Cajal body|cytoplasm|telomerase holoenzyme complex	protein binding|RNA binding				0						CAGCCCATTCGCTCTGCTTCT	0.622000													24	28	---	---	---	---	0	0	0.008361	0	0
MYO15A	51168	broad.mit.edu	37	17	18023164	18023164	+	Silent	SNP	C	T	T			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr17:18023164C>T	uc010vxh.1	+	2	1388	c.1050C>T	c.(1048-1050)GAC>GAT	p.D350D		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	350	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CGCCGTACGACGCGCCATACC	0.607000													10	180	---	---	---	---	0	0	0.001855	0	0
CDC27	996	broad.mit.edu	37	17	45219305	45219305	+	Missense_Mutation	SNP	T	C	C			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr17:45219305T>C	uc002ild.3	-	12	1592	c.1465A>G	c.(1465-1467)AGC>GGC	p.S489G	CDC27_uc002ile.3_Missense_Mutation_p.S495G|CDC27_uc002ilf.3_Missense_Mutation_p.S488G|CDC27_uc010wkp.1_Missense_Mutation_p.S428G|CDC27_uc010wkq.1_Intron	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	489					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						GGTAGATGGCTCAAAATATTT	0.378000													10	421	---	---	---	---	0	0	0.007413	0	0
OTOP3	347741	broad.mit.edu	37	17	72945406	72945406	+	Nonsense_Mutation	SNP	C	A	A			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr17:72945406C>A	uc010wrr.1	+	7	1686	c.1686C>A	c.(1684-1686)TAC>TAA	p.Y562*	OTOP3_uc010wrq.1_Nonsense_Mutation_p.Y544*	NM_178233	NP_839947	Q7RTS5	OTOP3_HUMAN	otopetrin 3	562	Helical; (Potential).					integral to membrane|intracellular	zinc ion binding			ovary(1)	1	all_lung(278;0.151)|Lung NSC(278;0.185)					AGGATTTCTACGGCTACCAGA	0.567000													3	125	---	---	---	---	0.000602214	0.000688245	0.000602	1	0
COL5A3	50509	broad.mit.edu	37	19	10114264	10114264	+	Missense_Mutation	SNP	G	T	T			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr19:10114264G>T	uc002mmq.1	-	6	912	c.826C>A	c.(826-828)CCT>ACT	p.P276T		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	276	Nonhelical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			GAGTCAGGAGGTGGACTTGAG	0.557000											OREG0025228	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	107	---	---	---	---	4.68919e-08	5.77131e-08	0.008291	1	0
ZNF83	55769	broad.mit.edu	37	19	53116885	53116885	+	Silent	SNP	A	G	G	rs7247257		TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr19:53116885A>G	uc002pzu.3	-	2	2177	c.933T>C	c.(931-933)CAT>CAC	p.H311H	ZNF83_uc002pzv.3_Silent_p.H311H|ZNF83_uc010eps.2_Silent_p.H283H|ZNF83_uc010ept.2_Silent_p.H311H|ZNF83_uc010epu.2_Silent_p.H311H|ZNF83_uc010epv.2_Silent_p.H311H|ZNF83_uc010epw.2_Silent_p.H311H|ZNF83_uc010epx.2_Silent_p.H283H|ZNF83_uc010epy.2_Silent_p.H311H|ZNF83_uc010epz.2_Silent_p.H283H	NM_018300	NP_060770	P51522	ZNF83_HUMAN	zinc finger protein 83 isoform a	311	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00841)|GBM - Glioblastoma multiforme(134;0.0244)		TCTCTCCAGTATGAATTCTCC	0.418000													3	166	---	---	---	---	0	0	0.004672	0	0
ALPP	250	broad.mit.edu	37	2	233243933	233243933	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr2:233243933G>A	uc002vsq.2	+	3	382	c.217G>A	c.(217-219)GCT>ACT	p.A73T	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	73						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		TACGGTGACAGCTGCCAGGAT	0.602000													3	91	---	---	---	---	0	0	0.001168	0	0
NGEF	25791	broad.mit.edu	37	2	233785159	233785159	+	Silent	SNP	C	T	T			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr2:233785159C>T	uc002vts.2	-	5	911	c.663G>A	c.(661-663)GAG>GAA	p.E221E	NGEF_uc010fyg.1_Silent_p.E129E|NGEF_uc002vtt.2_Silent_p.E129E	NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor	221	Poly-Glu.|Regulatory region; modulates activity toward RHOA, RAC1 and CDC42 (By similarity).				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		cctcctcctcctcttcttctt	0.473000													3	74	---	---	---	---	0	0	0.004672	0	0
FRG1B	284802	broad.mit.edu	37	20	29625875	29625875	+	Missense_Mutation	SNP	T	C	C	rs143761036	by1000genomes	TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr20:29625875T>C	uc010ztl.1	+	2	61	c.29T>C	c.(28-30)ATC>ACC	p.I10T	FRG1B_uc002wvm.1_RNA|FRG1B_uc010ztj.1_RNA|FRG1B_uc010gdr.1_RNA|FRG1B_uc010ztk.1_Intron					Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0						ATGTACAGAATCGCCCTGAAA	0.353000													7	117	---	---	---	---	0	0	0.006214	0	0
ZNFX1	57169	broad.mit.edu	37	20	47865945	47865945	+	Missense_Mutation	SNP	C	G	G			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr20:47865945C>G	uc002xui.2	-	14	3863	c.3616G>C	c.(3616-3618)GGC>CGC	p.G1206R		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1206							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CCCACCTTGCCTTCTTGGTTG	0.522000													4	205	---	---	---	---	0	0	0.009096	0	0
UTP3	57050	broad.mit.edu	37	4	71555625	71555625	+	Missense_Mutation	SNP	A	G	G			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr4:71555625A>G	uc003hfo.2	+	1	1430	c.1231A>G	c.(1231-1233)ATT>GTT	p.I411V		NM_020368	NP_065101	Q9NQZ2	SAS10_HUMAN	UTP3, small subunit processome component	411					brain development|chromatin modification|gene silencing	nucleolus					0			Lung(101;0.235)			AAAGAGAGCTATTACCTATCA	0.373000													49	55	---	---	---	---	0	0	0.014410	0	0
ADAMTS3	9508	broad.mit.edu	37	4	73178108	73178108	+	Missense_Mutation	SNP	T	A	A			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr4:73178108T>A	uc003hgk.1	-	13	1858	c.1821A>T	c.(1819-1821)AAA>AAT	p.K607N	ADAMTS3_uc003hgl.2_5'Flank	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	607					collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CCTCAAAGTGTTTTTGGCATT	0.423000													4	96	---	---	---	---	0	0	0.009096	0	0
DNAH5	1767	broad.mit.edu	37	5	13788939	13788939	+	Missense_Mutation	SNP	T	C	C			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr5:13788939T>C	uc003jfd.2	-	51	8575	c.8533A>G	c.(8533-8535)AAG>GAG	p.K2845E		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2845					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					ACTAAAGCCTTATCAAACCAG	0.398000									Kartagener_syndrome				3	141	---	---	---	---	0	0	0.009096	0	0
PCDHA6	56142	broad.mit.edu	37	5	140209347	140209347	+	Silent	SNP	C	T	T			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr5:140209347C>T	uc003lho.2	+	1	1698	c.1671C>T	c.(1669-1671)GAC>GAT	p.D557D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Silent_p.D557D	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	557	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGTGCTGGACGAGAACGACA	0.687000													4	133	---	---	---	---	0	0	0.001168	0	0
HAUS6	54801	broad.mit.edu	37	9	19058159	19058159	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr9:19058159G>A	uc003znk.2	-	16	2859	c.2606C>T	c.(2605-2607)ACT>ATT	p.T869I	HAUS6_uc011lmz.1_Missense_Mutation_p.T589I|HAUS6_uc003znl.1_Missense_Mutation_p.T733I	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	869					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						ATTTTGGGGAGTAGGGCTCAA	0.423000													4	228	---	---	---	---	0	0	0.001168	0	0
C5	727	broad.mit.edu	37	9	123725972	123725972	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr9:123725972G>A	uc004bkv.2	-	34	4295	c.4265C>T	c.(4264-4266)GCG>GTG	p.A1422V		NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	1422					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	GTCCATCACCGCATGAGAGGA	0.358000													3	79	---	---	---	---	0	0	0.009096	0	0
IQSEC2	23096	broad.mit.edu	37	X	53268422	53268422	+	Missense_Mutation	SNP	A	T	T			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chrX:53268422A>T	uc004dsd.2	-	11	3271	c.3070T>A	c.(3070-3072)TCT>ACT	p.S1024T	IQSEC2_uc004dsc.2_Missense_Mutation_p.S819T	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	1014	PH.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						AGGGGGAAAGACTGACGGAAA	0.512000											OREG0019800	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	41	---	---	---	---	0	0	0.004656	0	0
RAB39B	116442	broad.mit.edu	37	X	154490295	154490295	+	Silent	SNP	G	A	A			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chrX:154490295G>A	uc004fne.2	-	2	714	c.435C>T	c.(433-435)TAC>TAT	p.Y145Y		NM_171998	NP_741995	Q96DA2	RB39B_HUMAN	RAB39B, member RAS oncogene family	145					protein transport|small GTPase mediated signal transduction|synapse organization|vesicle-mediated transport	Golgi apparatus|plasma membrane	GTP binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					ACTTCATGCCGTATGCAGCAG	0.498000													4	96	---	---	---	---	0	0	0.009096	0	0
C10orf71	118461	broad.mit.edu	37	10	50534969	50534970	+	In_Frame_Ins	INS	-	ACACACACACAC	ACACACACACAC	rs66701434		TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr10:50534969_50534970insACACACACACAC	uc010qgp.1	+	4	2407_2408	c.2068_2069insACACACACACAC	c.(2068-2070)AAC>AACACACACACACAC	p.702_703insTHTH		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	Error:Variant_position_missing_in_Q711Q0_after_alignment											0						CAAAACAAGCAacacacacaca	0.406													3	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	127234439	127234439	+	IGR	DEL	G	-	-			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr10:127234439delG								CTBP2 (384815 upstream) : LOC100169752 (28501 downstream)																							aagggaagaagccacaccagg	0.000													2	4	---	---	---	---					
LOC100130581	100130581	broad.mit.edu	37	17	41466121	41466131	+	RNA	DEL	CGGCGCATGGA	-	-	rs66825422		TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr17:41466121_41466131delCGGCGCATGGA	uc010wib.1	-	1		c.136_146delTCCATGCGCCG			LOC100130581_uc010wic.1_RNA|LOC100130581_uc010czf.2_RNA|LOC100130581_uc010wid.1_RNA|LOC100130581_uc010wie.1_RNA	NR_027412				Homo sapiens cDNA FLJ41591 fis, clone CTONG2022153.												0						CAGAGGGAGGCGGCGCATGGACGGCGAGGGC	0.649													3	4	---	---	---	---					
MED13	9969	broad.mit.edu	37	17	60142663	60142663	+	5'Flank	DEL	G	-	-			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr17:60142663delG	uc002izo.2	-							NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13						androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						GGGGAGGGCCGGGGGGGGGGT	0.478													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	19	20634341	20634341	+	IGR	DEL	C	-	-			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr19:20634341delC								ZNF826 (26579 upstream) : ZNF737 (86458 downstream)																							ctcctgggttcagtgattctc	0.000													2	4	---	---	---	---					
FRG1B	284802	broad.mit.edu	37	20	29625899	29625900	+	Frame_Shift_Ins	INS	-	AT	AT			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr20:29625899_29625900insAT	uc010ztl.1	+	2	85_86	c.53_54insAT	c.(52-54)AAAfs	p.K18fs	FRG1B_uc002wvm.1_RNA|FRG1B_uc010ztj.1_RNA|FRG1B_uc010gdr.1_RNA|FRG1B_uc010ztk.1_Intron					Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0						GGCTATGGAAAATATCTTGGTA	0.342													7	190	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	44756570	44756571	+	IGR	INS	-	CATCAT	CATCAT			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr21:44756570_44756571insCATCAT								CRYAA (163657 upstream) : SIK1 (77827 downstream)																							accatcaccaccaccaccacca	0.000													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	4	146488179	146488181	+	IGR	DEL	TGC	-	-			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr4:146488179_146488181delTGC								SMAD1 (7856 upstream) : MMAA (52359 downstream)																							caccccgccatgctgctgctgct	0.000													3	5	---	---	---	---					
C8orf42	157695	broad.mit.edu	37	8	494659	494664	+	In_Frame_Del	DEL	GGCGGC	-	-			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr8:494659_494664delGGCGGC	uc003wpd.2	-	1	668_673	c.94_99delGCCGCC	c.(94-99)GCCGCCdel	p.AA32del	C8orf42_uc011kwg.1_In_Frame_Del_p.AA32del	NM_175075	NP_778250	Q86YL5	CH042_HUMAN	hypothetical protein LOC157695	32_33	Poly-Ala.										0		Ovarian(12;0.0481)|Colorectal(14;0.0815)|Hepatocellular(245;0.0968)|Myeloproliferative disorder(644;0.116)|all_neural(12;0.122)		Epithelial(5;5.16e-14)|OV - Ovarian serous cystadenocarcinoma(5;7.35e-07)|BRCA - Breast invasive adenocarcinoma(11;4.17e-06)|COAD - Colon adenocarcinoma(149;0.0255)		CCTGCGCCTGggcggcggcggcggcg	0.650													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	69876385	69876386	+	IGR	INS	-	TCT	TCT			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr9:69876385_69876386insTCT								LOC100133920 (211436 upstream) : FOXD4L5 (299323 downstream)																							TTCTTCTCTTCTCTTCTTGTTT	0.277													4	4	---	---	---	---					
NOTCH1	4851	broad.mit.edu	37	9	139390945	139390947	+	In_Frame_Del	DEL	GTG	-	-			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chr9:139390945_139390947delGTG	uc004chz.2	-	34	7244_7246	c.7244_7246delCAC	c.(7243-7248)CCACAG>CAG	p.P2415del		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2415	Cytoplasmic (Potential).|Poly-Pro.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.Q2417*(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		AGGTGCGGCTGTGGTGGTGGTGG	0.650			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			7	55	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	79797242	79797245	+	IGR	DEL	TGTC	-	-			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chrX:79797242_79797245delTGTC								FAM46D (96432 upstream) : BRWD3 (134438 downstream)																							ggtgtgtgtgtgtctgtctgtctg	0.000													2	4	---	---	---	---					
ARMCX3	51566	broad.mit.edu	37	X	100880152	100880154	+	In_Frame_Del	DEL	TGA	-	-			TCGA-EM-A3OB-01A-11D-A21Z-08	TCGA-EM-A3OB-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	32f66154-4799-4012-a4cf-9f492022e339	7267fa1d-9982-4712-8551-66d2fdb3778c	g.chrX:100880152_100880154delTGA	uc004ehz.1	+	5	716_718	c.183_185delTGA	c.(181-186)TCTGAT>TCT	p.D66del	ARMCX3_uc004eia.1_In_Frame_Del_p.D66del|ARMCX3_uc004eib.1_In_Frame_Del_p.D66del|ARMCX3_uc004eic.1_In_Frame_Del_p.D66del	NM_016607	NP_057691	Q9UH62	ARMX3_HUMAN	armadillo repeat containing, X-linked 3	66						integral to membrane	binding			ovary(1)|lung(1)	2						ATGACTGGTCTGATGATGATGAT	0.448													7	309	---	---	---	---					
