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	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	filter
ZSWIM5	57643	broad.mit.edu	37	1	45506168	45506168	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45506168G>T	uc001cnd.2	-	7	1880	c.1652C>A	c.(1651-1653)TCC>TAC	p.S551Y		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	551							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					ATAACCATGGGAACGCAGGGC	0.448													27	100	---	---	---	---	PASS
GLIS1	148979	broad.mit.edu	37	1	53972295	53972295	+	Silent	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53972295G>T	uc001cvr.1	-	10	2427	c.1860C>A	c.(1858-1860)ACC>ACA	p.T620T		NM_147193	NP_671726	Q8NBF1	GLIS1_HUMAN	GLIS family zinc finger 1	620					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			skin(1)	1						GGCTCCTTCAGGTGTCTGTGT	0.637													17	59	---	---	---	---	PASS
LPPR4	9890	broad.mit.edu	37	1	99771417	99771417	+	Missense_Mutation	SNP	A	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:99771417A>T	uc001dse.2	+	7	1249	c.1143A>T	c.(1141-1143)AGA>AGT	p.R381S	LPPR4_uc010oue.1_Missense_Mutation_p.R323S	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	381							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		GAAACCACAGAGATGCTAGCT	0.458													43	105	---	---	---	---	PASS
CDC14A	8556	broad.mit.edu	37	1	100928332	100928332	+	Missense_Mutation	SNP	T	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100928332T>C	uc001dtg.3	+	9	1221	c.733T>C	c.(733-735)TAT>CAT	p.Y245H	CDC14A_uc009web.2_RNA|CDC14A_uc010oui.1_Missense_Mutation_p.Y187H|CDC14A_uc001dte.3_Missense_Mutation_p.Y245H|CDC14A_uc001dtf.2_Missense_Mutation_p.Y245H|CDC14A_uc009wed.1_5'UTR|CDC14A_uc009wee.2_Missense_Mutation_p.Y245H	NM_003672	NP_003663	Q9UNH5	CC14A_HUMAN	CDC14 homolog A isoform 1	245	B.				cell cycle|cell division|cell proliferation	centrosome|nucleus|spindle	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			large_intestine(1)	1		all_epithelial(167;3.71e-06)|all_lung(203;0.00097)|Lung NSC(277;0.001)		Epithelial(280;0.0676)|all cancers(265;0.127)|COAD - Colon adenocarcinoma(174;0.201)|Lung(183;0.227)|Colorectal(144;0.241)		CTTCGAGCACTATGACCTCTT	0.473													27	69	---	---	---	---	PASS
HBXIP	10542	broad.mit.edu	37	1	110948984	110948984	+	Missense_Mutation	SNP	A	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110948984A>G	uc001dzr.2	-	2	357	c.299T>C	c.(298-300)ATT>ACT	p.I100T		NM_006402	NP_006393	O43504	HBXIP_HUMAN	hepatitis B virus x-interacting protein	18					anti-apoptosis|negative regulation of caspase activity|response to virus|viral genome replication	cytosol	protein binding			large_intestine(1)|ovary(1)|pancreas(1)	3		all_cancers(81;4.08e-06)|all_epithelial(167;4.38e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0237)|all cancers(265;0.0675)|Epithelial(280;0.0732)|Colorectal(144;0.102)|LUSC - Lung squamous cell carcinoma(189;0.134)		GACTCCAACAATGGAGGGATT	0.368													32	116	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	1	142803746	142803746	+	Intron	SNP	A	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142803746A>G	uc001eiw.1	+						uc001ejb.2_RNA|uc001ejc.2_Intron					Homo sapiens PNAS-130 mRNA, complete cds.																		actatggattagagctgatta	0.000													3	14	---	---	---	---	PASS
GON4L	54856	broad.mit.edu	37	1	155730387	155730387	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155730387G>T	uc001flz.2	-	24	5054	c.4957C>A	c.(4957-4959)CTT>ATT	p.L1653I	GON4L_uc009wrg.1_RNA|GON4L_uc001fly.1_Missense_Mutation_p.L1653I|GON4L_uc009wrh.1_Missense_Mutation_p.L1653I|GON4L_uc001fma.1_Missense_Mutation_p.L1653I|GON4L_uc001fmb.3_Missense_Mutation_p.L849I	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	1653	PAH 1.				regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					ATGACTTGAAGGAAGTCTTCA	0.463													45	147	---	---	---	---	PASS
C1orf129	80133	broad.mit.edu	37	1	170965678	170965678	+	Silent	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:170965678G>T	uc001ghg.2	+	14	1498	c.1368G>T	c.(1366-1368)CTG>CTT	p.L456L	C1orf129_uc009wvy.2_Silent_p.L263L|C1orf129_uc010plz.1_Silent_p.L456L	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	456							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GAGTTCTGCTGAATTGTTCTG	0.418													68	170	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	1	247902753	247902753	+	IGR	SNP	A	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247902753A>G								OR6F1 (26696 upstream) : OR1C1 (18013 downstream)																							ATTCTGTCGCACCTCCAACCT	0.393													29	61	---	---	---	---	PASS
EPT1	85465	broad.mit.edu	37	2	26587787	26587787	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26587787G>A	uc010ykz.1	+	3	361	c.214G>A	c.(214-216)GAT>AAT	p.D72N	EPT1_uc010eyl.1_RNA	NM_033505	NP_277040	Q9C0D9	EPT1_HUMAN	selenoprotein I	72					phospholipid biosynthetic process	integral to membrane	ethanolaminephosphotransferase activity|metal ion binding				0						GGCATACTTTGATCCTGACTT	0.328													33	76	---	---	---	---	PASS
SPTBN1	6711	broad.mit.edu	37	2	54891784	54891784	+	Missense_Mutation	SNP	T	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54891784T>A	uc002rxu.2	+	33	6864	c.6615T>A	c.(6613-6615)AAT>AAA	p.N2205K	SPTBN1_uc010you.1_Missense_Mutation_p.N195K	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	2205	PH.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			GCTTCCTCAATCGGAAACACG	0.562													14	42	---	---	---	---	PASS
ANKRD39	51239	broad.mit.edu	37	2	97514102	97514102	+	Missense_Mutation	SNP	T	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97514102T>C	uc002sxd.3	-	4	520	c.488A>G	c.(487-489)AAG>AGG	p.K163R		NM_016466	NP_057550	Q53RE8	ANR39_HUMAN	ankyrin repeat domain 39	163											0						TAGCCGTGCCTTTCGGTCCCG	0.612													12	63	---	---	---	---	PASS
SEMA4C	54910	broad.mit.edu	37	2	97527635	97527635	+	Intron	SNP	C	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97527635C>G	uc002sxh.3	-						SEMA4C_uc002sxf.3_5'UTR|SEMA4C_uc002sxe.2_5'UTR|SEMA4C_uc002sxg.3_Intron	NM_017789	NP_060259	Q9C0C4	SEM4C_HUMAN	semaphorin 4C precursor						muscle cell differentiation|nervous system development|positive regulation of stress-activated MAPK cascade	cell junction|integral to membrane|postsynaptic density|postsynaptic membrane|synaptic vesicle membrane	receptor activity			skin(2)	2						GCAGCTTCTGCGAGAAAAGCG	0.687													2	7	---	---	---	---	PASS
POTEE	445582	broad.mit.edu	37	2	131995769	131995769	+	Missense_Mutation	SNP	A	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:131995769A>C	uc002tsn.2	+	8	1252	c.1200A>C	c.(1198-1200)AAA>AAC	p.K400N	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_Intron	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	400	Potential.						ATP binding				0						CTCTGCAGAAAATGTCTCAAG	0.299													20	92	---	---	---	---	PASS
CXCR2P1	3580	broad.mit.edu	37	2	218925340	218925340	+	Silent	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:218925340G>T	uc002vgx.2	-	1	674	c.381C>A	c.(379-381)ACC>ACA	p.T127T	RUFY4_uc002vgw.2_Intron	NR_002712				Homo sapiens interleukin 8 receptor, beta pseudogene, mRNA (cDNA clone IMAGE:5450999), with apparent retained intron.												0						AGCAGGACCAGGTTGTAGGGC	0.557													19	55	---	---	---	---	PASS
PLCD4	84812	broad.mit.edu	37	2	219498885	219498885	+	Missense_Mutation	SNP	T	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219498885T>C	uc002vij.1	+	12	1859	c.1664T>C	c.(1663-1665)CTG>CCG	p.L555P	PLCD4_uc010zkk.1_3'UTR	NM_032726	NP_116115	Q9BRC7	PLCD4_HUMAN	phospholipase C, delta 4	555	PI-PLC Y-box.				intracellular signal transduction|lipid catabolic process	endoplasmic reticulum|membrane|nucleus	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)	3		Renal(207;0.0915)		Epithelial(149;5.11e-07)|all cancers(144;0.000104)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		CCCAGCGGCCTGAGGACAGAC	0.552													10	16	---	---	---	---	PASS
ALPI	248	broad.mit.edu	37	2	233321772	233321772	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233321772C>A	uc002vst.3	+	4	541	c.464C>A	c.(463-465)GCC>GAC	p.A155D	ALPI_uc002vsu.3_Missense_Mutation_p.A66D	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	155					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(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;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		ATGAACCGGGCCAAGCAAGCA	0.607													5	23	---	---	---	---	PASS
UGT1A8	54576	broad.mit.edu	37	2	234526875	234526875	+	Nonsense_Mutation	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234526875C>A	uc002vup.2	+	1	585	c.522C>A	c.(520-522)TGC>TGA	p.C174*	UGT1A8_uc010zmv.1_Nonsense_Mutation_p.C174*	NM_019076	NP_061949	Q9HAW9	UD18_HUMAN	UDP glycosyltransferase 1 family, polypeptide A8	174					drug metabolic process|fatty acid metabolic process|flavone metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme inhibitor activity|fatty acid binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|steroid binding			ovary(2)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;2.56e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000482)|Lung(119;0.00404)|LUSC - Lung squamous cell carcinoma(224;0.008)		GAATAGCTTGCCACTATCTTG	0.478													100	287	---	---	---	---	PASS
VHL	7428	broad.mit.edu	37	3	10183867	10183867	+	Nonsense_Mutation	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10183867C>A	uc003bvc.2	+	1	549	c.336C>A	c.(334-336)TAC>TAA	p.Y112*	VHL_uc003bvd.2_Nonsense_Mutation_p.Y112*	NM_000551	NP_000542	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor isoform 1	112	Involved in binding to CCT complex.		Y -> H (in VHLD; type IIA).|Y -> N (in VHLD).		anti-apoptosis|cell morphogenesis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell differentiation|positive regulation of transcription, DNA-dependent|protein stabilization|protein ubiquitination|proteolysis	cytosol|endoplasmic reticulum|membrane|mitochondrion|nucleus	protein binding|transcription factor binding	p.?(1)|p.Y112*(1)|p.Y112D(1)|p.I109_R113del(1)|p.S111fs*45(1)|p.R113fs*46(1)|p.Y112fs*1(1)|p.S111_Y112del(1)|p.Y112fs*47(1)		kidney(1273)|soft_tissue(24)|adrenal_gland(15)|large_intestine(13)|pancreas(5)|endometrium(4)|thyroid(3)|upper_aerodigestive_tract(3)|central_nervous_system(2)|lung(2)|pleura(1)|paratesticular_tissues(1)	1346				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		TCCACAGCTACCGAGGTACGG	0.637		1	D|Mis|N|F|S		renal|hemangioma|pheochromocytoma	renal|hemangioma|pheochromocytoma			von_Hippel-Lindau_disease|Chuvash_Polycythemia_|Pheochromocytoma_(Adrenal)_Familial				7	6	---	---	---	---	PASS
NUP210	23225	broad.mit.edu	37	3	13429823	13429823	+	Missense_Mutation	SNP	T	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:13429823T>A	uc003bxv.1	-	5	747	c.664A>T	c.(664-666)ATC>TTC	p.I222F		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	222	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					GCCTCCTGGATGCGAGCCTTG	0.592													31	72	---	---	---	---	PASS
TRIM71	131405	broad.mit.edu	37	3	32933360	32933360	+	3'UTR	SNP	C	T	T	rs144286810	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:32933360C>T	uc003cff.2	+	4						NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71						multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						ctctctctctctctctttctc	0.294													4	34	---	---	---	---	PASS
XIRP1	165904	broad.mit.edu	37	3	39225988	39225988	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39225988G>A	uc003cjk.1	-	2	5170	c.4949C>T	c.(4948-4950)TCA>TTA	p.S1650L	XIRP1_uc003cji.2_3'UTR|XIRP1_uc003cjj.2_Missense_Mutation_p.S333L	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	1650							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		ATACTCTCTTGATGTCTCCTG	0.542													23	71	---	---	---	---	PASS
XIRP1	165904	broad.mit.edu	37	3	39225989	39225989	+	Missense_Mutation	SNP	A	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39225989A>T	uc003cjk.1	-	2	5169	c.4948T>A	c.(4948-4950)TCA>ACA	p.S1650T	XIRP1_uc003cji.2_3'UTR|XIRP1_uc003cjj.2_Missense_Mutation_p.S333T	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	1650							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		TACTCTCTTGATGTCTCCTGC	0.542													23	69	---	---	---	---	PASS
HEMK1	51409	broad.mit.edu	37	3	50617926	50617926	+	3'UTR	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50617926G>A	uc003dau.2	+	11					HEMK1_uc003dav.2_3'UTR|HEMK1_uc003daw.2_3'UTR	NM_016173	NP_057257	Q9Y5R4	HEMK1_HUMAN	HemK methyltransferase family member 1						DNA methylation		DNA binding|N-methyltransferase activity|protein methyltransferase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000283)|KIRC - Kidney renal clear cell carcinoma(197;0.0179)|Kidney(197;0.0212)		CCAGAGCCCAGGTTCTTATGG	0.547													7	19	---	---	---	---	PASS
HTT	3064	broad.mit.edu	37	4	3138012	3138012	+	Silent	SNP	A	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3138012A>G	uc011bvq.1	+	22	2908	c.2763A>G	c.(2761-2763)GAA>GAG	p.E921E		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	919	HEAT 5.				establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TTGGAGATGAAGACCCCAGGG	0.348													32	74	---	---	---	---	PASS
DHX15	1665	broad.mit.edu	37	4	24541862	24541862	+	Missense_Mutation	SNP	T	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:24541862T>A	uc003gqx.2	-	10	1823	c.1655A>T	c.(1654-1656)GAT>GTT	p.D552V	DHX15_uc003gqw.2_5'Flank	NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	552					mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				CAGATCTCCATCATCATTTAA	0.418													74	238	---	---	---	---	PASS
NPFFR2	10886	broad.mit.edu	37	4	73013490	73013490	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:73013490G>A	uc003hgg.2	+	4	1628	c.1530G>A	c.(1528-1530)ATG>ATA	p.M510I	NPFFR2_uc010iig.1_Missense_Mutation_p.M292I|NPFFR2_uc003hgi.2_Missense_Mutation_p.M411I|NPFFR2_uc003hgh.2_Missense_Mutation_p.M408I|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	510	Cytoplasmic (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			AATTAGTGATGGAAGAATTAA	0.348													30	126	---	---	---	---	PASS
TACR3	6870	broad.mit.edu	37	4	104510994	104510994	+	Missense_Mutation	SNP	G	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104510994G>C	uc003hxe.1	-	5	1386	c.1243C>G	c.(1243-1245)CCC>GCC	p.P415A		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	415	Cytoplasmic (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		GCATCGTTGGGGTCAAACACG	0.512													101	428	---	---	---	---	PASS
PALLD	23022	broad.mit.edu	37	4	169633073	169633073	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169633073C>A	uc011cjx.1	+	10	2174	c.1963C>A	c.(1963-1965)CTA>ATA	p.L655I	PALLD_uc003iru.2_Missense_Mutation_p.L655I|PALLD_uc003irv.2_Missense_Mutation_p.L273I	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2	655	Pro-rich.|Interaction with LASP1 (By similarity).				cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		CAAACCAAAACTGTGAGTATT	0.408									Pancreatic_Cancer_Familial_Clustering_of				19	36	---	---	---	---	PASS
IRX1	79192	broad.mit.edu	37	5	3599432	3599432	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3599432C>A	uc003jde.2	+	2	422	c.370C>A	c.(370-372)CAA>AAA	p.Q124K		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	124						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CGGCCAGTTCCAATACGGGGA	0.652													10	67	---	---	---	---	PASS
NDUFAF2	91942	broad.mit.edu	37	5	60241050	60241050	+	5'UTR	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:60241050G>A	uc003jsp.3	+	1					NDUFAF2_uc003jso.3_RNA|ERCC8_uc003jsm.3_5'Flank|ERCC8_uc003jsl.3_5'Flank|ERCC8_uc011cqp.1_5'Flank|ERCC8_uc003jsn.3_5'Flank	NM_174889	NP_777549	Q8N183	MIMIT_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha							membrane|mitochondrion	electron carrier activity|NADH dehydrogenase (ubiquinone) activity				0		Lung NSC(810;3.36e-05)|Prostate(74;0.0225)|Ovarian(174;0.17)|Breast(144;0.237)				TGCGGGTCCCGCTGCTGGCAG	0.632													3	13	---	---	---	---	PASS
PHF15	23338	broad.mit.edu	37	5	133887864	133887864	+	Silent	SNP	T	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133887864T>C	uc003kzo.1	+	4	455	c.276T>C	c.(274-276)CCT>CCC	p.P92P	PHF15_uc011cxt.1_Silent_p.P92P|PHF15_uc003kzk.2_Silent_p.P108P|PHF15_uc003kzl.2_Silent_p.P92P|PHF15_uc003kzm.2_Silent_p.P92P|PHF15_uc003kzn.2_Silent_p.P92P	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	92					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TGCAGGTGCCTGCCGGGGCAG	0.637													21	63	---	---	---	---	PASS
PCDHA5	56143	broad.mit.edu	37	5	140203675	140203675	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140203675G>T	uc003lhl.2	+	1	2315	c.2315G>T	c.(2314-2316)AGT>ATT	p.S772I	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_Missense_Mutation_p.S772I|PCDHA5_uc003lhj.1_Missense_Mutation_p.S772I	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	772	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGGCCTTCAGTCCAAGCCTT	0.502													33	92	---	---	---	---	PASS
PCDHGA10	56106	broad.mit.edu	37	5	140794506	140794506	+	Silent	SNP	C	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140794506C>T	uc003lkl.1	+	1	1764	c.1764C>T	c.(1762-1764)CCC>CCT	p.P588P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.P588P|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	588	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGCAGAGCCCGGCTACCTGG	0.672													56	220	---	---	---	---	PASS
MRPL22	29093	broad.mit.edu	37	5	154330404	154330404	+	Missense_Mutation	SNP	A	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154330404A>T	uc003lvy.3	+	3	139	c.101A>T	c.(100-102)CAC>CTC	p.H34L	MRPL22_uc003lvz.3_Intron	NM_014180	NP_054899	Q9NWU5	RM22_HUMAN	mitochondrial ribosomal protein L22 isoform a	34					translation	large ribosomal subunit|mitochondrion	structural constituent of ribosome				0	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TCATATATCCACACAAGTGCT	0.388													41	157	---	---	---	---	PASS
RNF44	22838	broad.mit.edu	37	5	175956230	175956230	+	Intron	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175956230C>A	uc003mek.1	-						RNF44_uc011dfo.1_Intron|RNF44_uc003mel.1_Missense_Mutation_p.W121L	NM_014901	NP_055716	Q7L0R7	RNF44_HUMAN	ring finger protein 44								zinc ion binding				0	all_cancers(89;0.0029)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAGCCCAGGCCAGCCCATCCC	0.577													7	24	---	---	---	---	PASS
ZNF879	345462	broad.mit.edu	37	5	178454496	178454496	+	Missense_Mutation	SNP	T	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178454496T>G	uc003mjt.3	+	3	221	c.56T>G	c.(55-57)GTG>GGG	p.V19G		NM_001136116	NP_001129588	B4DU55	ZN879_HUMAN	zinc finger protein 879	19	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						TTCAGGGATGTGGCCGTGTTC	0.562													4	42	---	---	---	---	PASS
PHACTR1	221692	broad.mit.edu	37	6	13206174	13206174	+	Silent	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13206174G>A	uc010jpc.2	+	8	1124	c.792G>A	c.(790-792)CAG>CAA	p.Q264Q	PHACTR1_uc011dir.1_Silent_p.Q333Q|PHACTR1_uc003nag.1_Silent_p.Q264Q|PHACTR1_uc003nah.1_Silent_p.Q264Q	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	264						cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			ACACAGCCCAGAAGAGTGGCC	0.627													23	53	---	---	---	---	PASS
SLC17A1	6568	broad.mit.edu	37	6	25811911	25811911	+	Missense_Mutation	SNP	T	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25811911T>A	uc003nfh.3	-	9	1101	c.985A>T	c.(985-987)AAT>TAT	p.N329Y	SLC17A1_uc011djy.1_RNA|SLC17A1_uc010jqb.1_Missense_Mutation_p.N327Y|SLC17A1_uc010jqc.1_Missense_Mutation_p.N273Y	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	329					sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						CTGAGAATATTCCTGGTCAGG	0.453													42	86	---	---	---	---	PASS
SLC44A4	80736	broad.mit.edu	37	6	31833744	31833744	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31833744G>T	uc010jti.2	-	14	1459	c.1393C>A	c.(1393-1395)CTC>ATC	p.L465I		NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	465	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	GCTCCAGCGAGGACGCATTGG	0.562													25	68	---	---	---	---	PASS
CUL9	23113	broad.mit.edu	37	6	43170869	43170869	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43170869G>T	uc003ouk.2	+	18	3851	c.3776G>T	c.(3775-3777)AGC>ATC	p.S1259I	CUL9_uc003oul.2_Missense_Mutation_p.S1259I|CUL9_uc010jyk.2_Missense_Mutation_p.S411I	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1259	DOC.				ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CCCTCTGCCAGCCGGGTGATC	0.552													21	69	---	---	---	---	PASS
RWDD2A	112611	broad.mit.edu	37	6	83906084	83906084	+	3'UTR	SNP	C	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83906084C>G	uc003pjx.3	+	3					PGM3_uc011dyz.1_5'Flank|RWDD2A_uc011dza.1_3'UTR	NM_033411	NP_219479	Q9UIY3	RWD2A_HUMAN	RWD domain containing 2A												0		all_cancers(76;2.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00217)		BRCA - Breast invasive adenocarcinoma(397;0.045)		GTGTAGCATCCTCAGTGCAAA	0.368													8	14	---	---	---	---	PASS
HACE1	57531	broad.mit.edu	37	6	105177476	105177476	+	3'UTR	SNP	C	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105177476C>G	uc003pqu.1	-	24					HACE1_uc010kcy.1_3'UTR|HACE1_uc010kcz.1_3'UTR|HACE1_uc010kcx.1_3'UTR|HACE1_uc003pqt.1_3'UTR	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		TGACATTTTCCCAAATTACTT	0.413													21	42	---	---	---	---	PASS
STX7	8417	broad.mit.edu	37	6	132785212	132785212	+	Missense_Mutation	SNP	T	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132785212T>A	uc003qdg.2	-	9	863	c.613A>T	c.(613-615)AGC>TGC	p.S205C	STX7_uc011ecg.1_RNA|STX7_uc011ech.1_Missense_Mutation_p.S30C	NM_003569	NP_003560	O15400	STX7_HUMAN	syntaxin 7	205	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				intracellular protein transport|post-Golgi vesicle-mediated transport	early endosome membrane|integral to membrane	SNAP receptor activity				0	Breast(56;0.0615)			OV - Ovarian serous cystadenocarcinoma(155;0.00532)|GBM - Glioblastoma multiforme(226;0.0114)		GCTTCTATGCTATCTGTAAAA	0.368													53	177	---	---	---	---	PASS
STX7	8417	broad.mit.edu	37	6	132785213	132785213	+	Missense_Mutation	SNP	A	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132785213A>T	uc003qdg.2	-	9	862	c.612T>A	c.(610-612)GAT>GAA	p.D204E	STX7_uc011ecg.1_RNA|STX7_uc011ech.1_Nonsense_Mutation_p.Y29*	NM_003569	NP_003560	O15400	STX7_HUMAN	syntaxin 7	204	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				intracellular protein transport|post-Golgi vesicle-mediated transport	early endosome membrane|integral to membrane	SNAP receptor activity				0	Breast(56;0.0615)			OV - Ovarian serous cystadenocarcinoma(155;0.00532)|GBM - Glioblastoma multiforme(226;0.0114)		CTTCTATGCTATCTGTAAAAT	0.368													52	176	---	---	---	---	PASS
MAP7	9053	broad.mit.edu	37	6	136683700	136683700	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136683700C>A	uc003qgz.2	-	11	1660	c.1414G>T	c.(1414-1416)GGC>TGC	p.G472C	MAP7_uc011edf.1_Missense_Mutation_p.G457C|MAP7_uc011edg.1_Missense_Mutation_p.G502C|MAP7_uc010kgu.2_Missense_Mutation_p.G494C|MAP7_uc011edh.1_Missense_Mutation_p.G457C|MAP7_uc010kgv.2_Missense_Mutation_p.G494C|MAP7_uc010kgs.2_Missense_Mutation_p.G326C|MAP7_uc011edi.1_Missense_Mutation_p.G326C|MAP7_uc010kgq.1_Missense_Mutation_p.G378C|MAP7_uc003qha.1_Missense_Mutation_p.G435C	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	472					establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		TCGGTGGTGCCTGCAGAAGTC	0.408													34	69	---	---	---	---	PASS
SLC35D3	340146	broad.mit.edu	37	6	137245615	137245615	+	Silent	SNP	C	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:137245615C>T	uc003qhe.2	+	2	1197	c.1032C>T	c.(1030-1032)GGC>GGT	p.G344G		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	344					carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		GAGGAAATGGCCGGTCAGAAG	0.692													3	41	---	---	---	---	PASS
UTRN	7402	broad.mit.edu	37	6	144812074	144812074	+	Missense_Mutation	SNP	C	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144812074C>G	uc003qkt.2	+	31	4365	c.4273C>G	c.(4273-4275)CGA>GGA	p.R1425G		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1425	Interaction with SYNM.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		GAGGAAACTCCGAGAGGTGTC	0.443													27	76	---	---	---	---	PASS
AKAP12	9590	broad.mit.edu	37	6	151670459	151670459	+	Silent	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151670459C>A	uc011eep.1	+	4	1173	c.933C>A	c.(931-933)ACC>ACA	p.T311T	AKAP12_uc003qoe.2_Silent_p.T311T|AKAP12_uc003qof.2_Silent_p.T213T|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Silent_p.T206T	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	311	Involved in PKC-binding (Probable).				G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GCAAAAAGACCAGTTTCAGGA	0.483													9	21	---	---	---	---	PASS
MRPL18	29074	broad.mit.edu	37	6	160218317	160218317	+	Splice_Site	SNP	A	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160218317A>C	uc003qsw.3	+	3	368	c.240_splice	c.e3-2	p.R80_splice	MRPL18_uc010kkb.2_Splice_Site|PNLDC1_uc003qsx.1_5'Flank|PNLDC1_uc003qsy.1_5'Flank	NM_014161	NP_054880	Q9H0U6	RM18_HUMAN	mitochondrial ribosomal protein L18 precursor						rRNA transport|translation	mitochondrial ribosome	5S rRNA binding|structural constituent of ribosome				0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.79e-06)		CACCCCATTTAGGTTGCGAGT	0.388													17	48	---	---	---	---	PASS
EVX1	2128	broad.mit.edu	37	7	27282680	27282680	+	Missense_Mutation	SNP	C	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27282680C>G	uc003szd.1	+	1	517	c.31C>G	c.(31-33)CTG>GTG	p.L11V	EVX1_uc011jzn.1_5'UTR|EVX1_uc010kuy.1_Missense_Mutation_p.L11V	NM_001989	NP_001980	P49640	EVX1_HUMAN	even-skipped homeobox 1	11						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GGTTGTGTTTCTGGATGGGGG	0.627													4	5	---	---	---	---	PASS
PARP12	64761	broad.mit.edu	37	7	139741631	139741631	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139741631C>A	uc003vvl.1	-	6	1869	c.995G>T	c.(994-996)TGC>TTC	p.C332F	PARP12_uc003vvk.1_Missense_Mutation_p.C118F|PARP12_uc010lnf.1_RNA	NM_022750	NP_073587	Q9H0J9	PAR12_HUMAN	poly ADP-ribose polymerase 12	332	WWE 1.					nucleus	NAD+ ADP-ribosyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)	3	Melanoma(164;0.0142)					TGACTCAGAGCACAGGATCCT	0.527													57	132	---	---	---	---	PASS
GIMAP8	155038	broad.mit.edu	37	7	150164190	150164190	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150164190G>A	uc003whj.2	+	2	734	c.404G>A	c.(403-405)CGG>CAG	p.R135Q		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	135						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		GTCTTCACTCGGAAGGATGAT	0.468													26	85	---	---	---	---	PASS
PKHD1L1	93035	broad.mit.edu	37	8	110530496	110530496	+	Silent	SNP	T	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110530496T>A	uc003yne.2	+	73	11894	c.11790T>A	c.(11788-11790)GTT>GTA	p.V3930V		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3930	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CTATACCTGTTGAAATTCACA	0.373										HNSCC(38;0.096)			52	133	---	---	---	---	PASS
PLEC	5339	broad.mit.edu	37	8	145004392	145004392	+	Silent	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145004392G>A	uc003zaf.1	-	21	3113	c.2943C>T	c.(2941-2943)AGC>AGT	p.S981S	PLEC_uc003zab.1_Silent_p.S844S|PLEC_uc003zac.1_Silent_p.S848S|PLEC_uc003zad.2_Silent_p.S844S|PLEC_uc003zae.1_Silent_p.S812S|PLEC_uc003zag.1_Silent_p.S822S|PLEC_uc003zah.2_Silent_p.S830S|PLEC_uc003zaj.2_Silent_p.S871S	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	981	Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CGCTGCCGGAGCTGCTGAGCA	0.711													3	4	---	---	---	---	PASS
ZCCHC6	79670	broad.mit.edu	37	9	88960584	88960584	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88960584C>A	uc004aoq.2	-	4	1034	c.819G>T	c.(817-819)AAG>AAT	p.K273N	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.K273N|ZCCHC6_uc004aou.2_Missense_Mutation_p.K273N|ZCCHC6_uc004aov.2_Missense_Mutation_p.K273N|ZCCHC6_uc004aow.2_Missense_Mutation_p.K273N	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	273					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						TTCAATTTACCTTAATGTTTT	0.353													28	97	---	---	---	---	PASS
KIAA1529	57653	broad.mit.edu	37	9	100132270	100132270	+	Missense_Mutation	SNP	A	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100132270A>C	uc011lut.1	+	44	5578	c.4805A>C	c.(4804-4806)AAT>ACT	p.N1602T	KIAA1529_uc004axe.1_Missense_Mutation_p.N1408T|KIAA1529_uc004axg.1_Missense_Mutation_p.N1463T|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Missense_Mutation_p.N556T	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				GTGATGGAGAATTTCAAGGAA	0.517													12	42	---	---	---	---	PASS
NIPSNAP3B	55335	broad.mit.edu	37	9	107528730	107528730	+	Missense_Mutation	SNP	T	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:107528730T>C	uc004bci.2	+	2	256	c.185T>C	c.(184-186)CTT>CCT	p.L62P	NIPSNAP3A_uc011lvu.1_Intron|NIPSNAP3B_uc004bcj.1_RNA	NM_018376	NP_060846	Q9BS92	NPS3B_HUMAN	nipsnap homolog 3B	62										pancreas(1)|skin(1)	2						AACATTCATCTTCGGACCTCT	0.358													75	232	---	---	---	---	PASS
GAPVD1	26130	broad.mit.edu	37	9	128109084	128109084	+	Intron	SNP	C	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:128109084C>T	uc010mwx.2	+						GAPVD1_uc004bpp.2_Intron|GAPVD1_uc004bpq.2_Intron|GAPVD1_uc004bpr.2_Intron|GAPVD1_uc004bps.2_Intron|GAPVD1_uc004bpt.2_Silent_p.L44L	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1						endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						CTCTCACTCTCCTTTCCCTTG	0.468													15	49	---	---	---	---	PASS
HECTD2	143279	broad.mit.edu	37	10	93220253	93220253	+	Missense_Mutation	SNP	C	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93220253C>T	uc001khl.2	+	3	438	c.338C>T	c.(337-339)TCC>TTC	p.S113F	LOC100188947_uc010qnl.1_Intron|HECTD2_uc001khk.2_Missense_Mutation_p.S113F|HECTD2_uc010qnm.1_Missense_Mutation_p.S113F|HECTD2_uc001khm.2_RNA|HECTD2_uc009xty.1_5'Flank	NM_182765	NP_877497	Q5U5R9	HECD2_HUMAN	HECT domain containing 2 isoform a	113					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			skin(1)	1						GCATCATCATCCGAAATGAAG	0.373													93	204	---	---	---	---	PASS
MUC5B	727897	broad.mit.edu	37	11	1264224	1264224	+	Silent	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1264224C>A	uc009ycr.1	+	47	8319	c.8193C>A	c.(8191-8193)ACC>ACA	p.T2731T	MUC5B_uc001ltb.2_Silent_p.T2041T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	2038	7 X Cys-rich subdomain repeats.|11 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTGTGGCCACCCCCTCCTCCA	0.647													11	45	---	---	---	---	PASS
TRIM6	117854	broad.mit.edu	37	11	5626471	5626471	+	Intron	SNP	C	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5626471C>G	uc001mbc.1	+						HBG2_uc001mak.1_Intron|TRIM6-TRIM34_uc001mbf.2_Intron|TRIM6_uc009yeo.1_Intron|TRIM6_uc010qzj.1_Intron|TRIM6_uc001mbe.2_Intron|TRIM6_uc010qzk.1_Intron|TRIM6_uc010qzl.1_Intron|TRIM6_uc001mbd.2_Intron|TRIM6_uc001mbg.1_5'UTR|TRIM6_uc009yep.1_5'Flank	NM_058166	NP_477514	Q9C030	TRIM6_HUMAN	tripartite motif-containing 6 isoform 2						protein trimerization	cytoplasm	zinc ion binding				0		Lung NSC(207;2.23e-07)|all_lung(207;1.81e-06)|Medulloblastoma(188;0.00225)|Breast(177;0.0101)|all_neural(188;0.0212)		Epithelial(150;1.12e-45)|BRCA - Breast invasive adenocarcinoma(625;0.00101)|LUSC - Lung squamous cell carcinoma(625;0.192)		AGGCTTGGCCCAGGAAAGCAG	0.522											OREG0003723	type=REGULATORY REGION|Gene=TRIM6|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	12	25	---	---	---	---	PASS
SBF2	81846	broad.mit.edu	37	11	9980659	9980659	+	Intron	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:9980659G>T	uc001mib.2	-						SBF2_uc001mif.3_Intron|SBF2_uc001mih.3_3'UTR	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2						myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		CTATCACTCCGAAGTCTTCAC	0.498													8	18	---	---	---	---	PASS
SLC3A2	6520	broad.mit.edu	37	11	62650443	62650443	+	Missense_Mutation	SNP	A	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62650443A>G	uc001nwd.2	+	6	1189	c.965A>G	c.(964-966)CAG>CGG	p.Q322R	SLC3A2_uc001nwb.2_Missense_Mutation_p.Q353R|SLC3A2_uc001nwc.2_Missense_Mutation_p.Q323R|SLC3A2_uc001nwe.2_Missense_Mutation_p.Q291R|SLC3A2_uc001nwf.2_Missense_Mutation_p.Q260R|SLC3A2_uc001nwg.2_Missense_Mutation_p.Q221R|SLC3A2_uc010rml.1_RNA	NM_002394	NP_002385	P08195	4F2_HUMAN	solute carrier family 3, member 2 isoform c	322	Extracellular (Potential).				blood coagulation|carbohydrate metabolic process|cell growth|cellular nitrogen compound metabolic process|leucine import|leukocyte migration|tryptophan transport	apical plasma membrane|cell surface|integral to membrane|melanosome	calcium:sodium antiporter activity|catalytic activity|cation binding|neutral amino acid transmembrane transporter activity|protein binding				0						TTCTCCACTCAGGTTGACACT	0.547													52	121	---	---	---	---	PASS
YAP1	10413	broad.mit.edu	37	11	102100588	102100588	+	Silent	SNP	T	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102100588T>C	uc001pgt.2	+	9	1802	c.1432T>C	c.(1432-1434)TTG>CTG	p.L478L	YAP1_uc001pgs.2_Silent_p.L428L|YAP1_uc001pgu.2_Silent_p.L462L|YAP1_uc001pgv.2_Silent_p.L424L|YAP1_uc010ruo.1_Silent_p.L300L|YAP1_uc001pgw.2_Silent_p.L302L|YAP1_uc010rup.1_Silent_p.L243L	NM_001130145	NP_001123617	P46937	YAP1_HUMAN	Yes-associated protein 1, 65kDa isoform 1	478	Transactivation domain.				cell proliferation|cellular response to gamma radiation|contact inhibition|hippo signaling cascade|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription coactivator activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_cancers(8;0.000575)|all_epithelial(12;0.00564)	Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.00936)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0189)		GCAGGAAGCTTTGAGTTCTGA	0.468													69	165	---	---	---	---	PASS
HSPA8	3312	broad.mit.edu	37	11	122931841	122931841	+	Silent	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:122931841G>A	uc001pyo.2	-	2	270	c.192C>T	c.(190-192)ACC>ACT	p.T64T	HSPA8_uc009zbc.2_5'Flank|HSPA8_uc001pyp.2_Silent_p.T64T|HSPA8_uc010rzu.1_Silent_p.T64T|HSPA8_uc009zbd.1_Silent_p.T64T|HSPA8_uc010rzv.1_Silent_p.T64T	NM_006597	NP_006588	P11142	HSP7C_HUMAN	heat shock 70kDa protein 8 isoform 1	64					cellular membrane organization|interspecies interaction between organisms|mRNA metabolic process|negative regulation of transcription, DNA-dependent|neurotransmitter secretion|post-Golgi vesicle-mediated transport|protein folding|response to unfolded protein|transcription, DNA-dependent	cell surface|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|melanosome|plasma membrane|ribonucleoprotein complex	ATP binding|ATPase activity, coupled|protein binding			central_nervous_system(7)|lung(1)	8		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		AAACTGTGTTGGTGGGGTTCA	0.428													24	65	---	---	---	---	PASS
ZBTB44	29068	broad.mit.edu	37	11	130131043	130131043	+	Silent	SNP	A	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130131043A>T	uc001qga.2	-	2	1120	c.726T>A	c.(724-726)CCT>CCA	p.P242P	ZBTB44_uc001qgb.3_Silent_p.P242P|ZBTB44_uc001qfx.2_RNA|ZBTB44_uc001qgc.1_Silent_p.P242P|ZBTB44_uc001qfz.2_Silent_p.P242P	NM_014155	NP_054874	Q8NCP5	ZBT44_HUMAN	zinc finger and BTB domain containing 44	242					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0192)|Lung(977;0.235)		TAACTTTCTCAGGCTGAATCC	0.418													31	73	---	---	---	---	PASS
PTPN11	5781	broad.mit.edu	37	12	112891015	112891015	+	Missense_Mutation	SNP	C	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112891015C>T	uc001ttx.2	+	4	729	c.349C>T	c.(349-351)CTC>TTC	p.L117F	PTPN11_uc001ttw.1_Missense_Mutation_p.L117F	NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	117	SH2 2.				axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding			haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						TCATGGACATCTCTCTGGGAA	0.358			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				50	134	---	---	---	---	PASS
NCRNA00173	100287569	broad.mit.edu	37	12	116972368	116972368	+	RNA	SNP	C	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116972368C>T	uc001tvx.1	+	2		c.639C>T			NCRNA00173_uc001tvy.2_Intron	NR_027345				Homo sapiens cDNA FLJ42957 fis, clone BRSTN2010500.												0						CCAATGCTGGCCGGCCCGCAG	0.438													3	37	---	---	---	---	PASS
PITPNM2	57605	broad.mit.edu	37	12	123481921	123481921	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123481921G>T	uc001uej.1	-	10	1562	c.1423C>A	c.(1423-1425)CTG>ATG	p.L475M	PITPNM2_uc001uek.1_Missense_Mutation_p.L475M	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	475					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		CAGGGCACCAGGCGGATGGCA	0.652													25	60	---	---	---	---	PASS
PAN3	255967	broad.mit.edu	37	13	28844883	28844883	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28844883C>A	uc001urz.2	+	12	1408	c.1400C>A	c.(1399-1401)CCA>CAA	p.P467Q	PAN3_uc010tdo.1_Missense_Mutation_p.P613Q|PAN3_uc001ury.2_Missense_Mutation_p.P301Q|PAN3_uc001urx.2_Missense_Mutation_p.P413Q	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	613	Protein kinase.|Interaction with PAN2.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		GGATTATTGCCAGAATCTCTT	0.403													67	190	---	---	---	---	PASS
UCHL3	7347	broad.mit.edu	37	13	76140954	76140954	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:76140954G>A	uc001vjq.2	+	4	337	c.307G>A	c.(307-309)GCT>ACT	p.A103T	UCHL3_uc001vjr.2_Missense_Mutation_p.A67T	NM_006002	NP_005993	P15374	UCHL3_HUMAN	ubiquitin carboxyl-terminal esterase L3	103					ubiquitin-dependent protein catabolic process	cytoplasm	cysteine-type peptidase activity|ubiquitin binding|ubiquitin thiolesterase activity				0				GBM - Glioblastoma multiforme(99;0.0125)		ACTGATTCATGCTATTGCAAA	0.343													58	172	---	---	---	---	PASS
PSMC6	5706	broad.mit.edu	37	14	53187597	53187597	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:53187597G>A	uc010tqx.1	+	11	838	c.838G>A	c.(838-840)GGA>AGA	p.G280R	PSMC6_uc001wzy.2_5'Flank	NM_002806	NP_002797	P62333	PRS10_HUMAN	proteasome 26S ATPase subunit 6	266					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding, bridging			lung(1)	1	Breast(41;0.176)					TCAAATGGATGGATTTGATAC	0.323													23	39	---	---	---	---	PASS
FERMT2	10979	broad.mit.edu	37	14	53417220	53417220	+	Missense_Mutation	SNP	G	A	A	rs147527926	byFrequency	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:53417220G>A	uc001xad.2	-	2	122	c.67C>T	c.(67-69)CAT>TAT	p.H23Y	FERMT2_uc001xac.2_Missense_Mutation_p.H23Y|FERMT2_uc001xae.2_Missense_Mutation_p.H23Y|FERMT2_uc001xaf.2_Missense_Mutation_p.H23Y	NM_006832	NP_006823	Q96AC1	FERM2_HUMAN	fermitin family homolog 2 isoform 1	23					actin cytoskeleton organization|cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytosol|focal adhesion|stress fiber	binding				0	Breast(41;0.0342)					TCCGTCACATGGACACTCAGT	0.597													57	118	---	---	---	---	PASS
NDN	4692	broad.mit.edu	37	15	23932263	23932263	+	Silent	SNP	C	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23932263C>T	uc001ywk.2	-	1	188	c.102G>A	c.(100-102)CCG>CCA	p.P34P		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	34					negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		GGGTCGCGGACGGAGGAACCC	0.692									Prader-Willi_syndrome				4	19	---	---	---	---	PASS
ARHGAP11B	89839	broad.mit.edu	37	15	30938440	30938440	+	RNA	SNP	A	G	G	rs115448147	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:30938440A>G	uc010azv.1	+	11		c.1250A>G			ARHGAP11B_uc001zeu.2_RNA			Q3KRB8	RHGBB_HUMAN	Homo sapiens cDNA, FLJ17072.						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0		all_lung(180;2.71e-09)|Breast(32;0.00116)		all cancers(64;1.9e-15)|Epithelial(43;3.59e-12)|GBM - Glioblastoma multiforme(186;9e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)|Lung(196;0.153)		CTCCTTTGCTATTTGTGCATG	0.493													5	34	---	---	---	---	PASS
LINGO1	84894	broad.mit.edu	37	15	77907673	77907673	+	Missense_Mutation	SNP	G	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:77907673G>C	uc002bct.1	-	2	628	c.576C>G	c.(574-576)AGC>AGG	p.S192R	LINGO1_uc002bcu.1_Missense_Mutation_p.S186R	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	192	Extracellular (Potential).|LRR 6.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						GCTGCTCCAGGCTGTTGAGGC	0.597													30	79	---	---	---	---	PASS
DNAJA4	55466	broad.mit.edu	37	15	78565450	78565450	+	Silent	SNP	A	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78565450A>G	uc002bdj.1	+	3	444	c.327A>G	c.(325-327)GTA>GTG	p.V109V	DNAJA4_uc002bdi.2_Silent_p.V138V|DNAJA4_uc002bdk.2_Silent_p.V82V|DNAJA4_uc002bdl.2_Silent_p.V24V|DNAJA4_uc002bdm.1_5'Flank	NM_001130182	NP_001123654	Q8WW22	DNJA4_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 4	109					protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			skin(1)	1						AGAATGTTGTACACCAGTTAT	0.338													60	266	---	---	---	---	PASS
GOLGA6L10	647042	broad.mit.edu	37	15	82809008	82809008	+	Intron	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:82809008G>A	uc010unt.1	-						uc002bhl.2_Intron|uc002bhm.2_Intron|uc010unw.1_RNA			A6NI86	GG6LA_HUMAN	Homo sapiens cDNA FLJ40113 fis, clone TESTI2008621.												0						TGCTGGAGCTGGGGTGGGAAG	0.642													3	3	---	---	---	---	PASS
AMDHD2	51005	broad.mit.edu	37	16	2579481	2579481	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2579481G>A	uc002cqq.2	+	11	1244	c.1147G>A	c.(1147-1149)GTG>ATG	p.V383M	AMDHD2_uc002cqp.2_Missense_Mutation_p.V413M|AMDHD2_uc010uwc.1_Missense_Mutation_p.V413M|AMDHD2_uc010uwd.1_Missense_Mutation_p.V177M	NM_015944	NP_057028	Q9Y303	NAGA_HUMAN	amidohydrolase domain containing 2 isoform 1	383					N-acetylglucosamine metabolic process		N-acetylglucosamine-6-phosphate deacetylase activity			skin(2)|large_intestine(1)|breast(1)	4						CCCAGACTTCGTGGTGCTCGA	0.652													41	164	---	---	---	---	PASS
NFAT5	10725	broad.mit.edu	37	16	69727140	69727140	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69727140C>A	uc002exm.1	+	12	4566	c.3358C>A	c.(3358-3360)CAA>AAA	p.Q1120K	NFAT5_uc002exi.2_Missense_Mutation_p.Q1044K|NFAT5_uc002exj.1_Missense_Mutation_p.Q1044K|NFAT5_uc002exk.1_Missense_Mutation_p.Q1044K|NFAT5_uc002exl.1_Missense_Mutation_p.Q1138K|NFAT5_uc002exn.1_Missense_Mutation_p.Q1137K|NFAT5_uc002exo.1_RNA	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	1120					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GTTTCACTCTCAAAGTACCAT	0.428													149	227	---	---	---	---	PASS
OR1D2	4991	broad.mit.edu	37	17	2995985	2995985	+	Nonsense_Mutation	SNP	G	T	T	rs140264769		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2995985G>T	uc010vrb.1	-	1	306	c.306C>A	c.(304-306)TAC>TAA	p.Y102*		NM_002548	NP_002539	P34982	OR1D2_HUMAN	olfactory receptor, family 1, subfamily D,	102	Helical; Name=3; (Potential).				cellular component movement|chemotaxis|protein import into nucleus, translocation|sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						AGACCAGGAAGTAGAGCTGTG	0.547													52	145	---	---	---	---	PASS
TIAF1	9220	broad.mit.edu	37	17	27401024	27401024	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27401024G>T	uc002hdv.1	-	1	1604	c.194C>A	c.(193-195)CCC>CAC	p.P65H	MYO18A_uc010wbc.1_3'UTR|MYO18A_uc002hds.2_3'UTR|MYO18A_uc010csa.1_3'UTR|MYO18A_uc002hdt.1_3'UTR|MYO18A_uc002hdu.1_3'UTR	NM_004740	NP_004731	O95411	TIAF1_HUMAN	TGFB1-induced anti-apoptotic factor 1	65					anti-apoptosis|apoptosis|I-kappaB kinase/NF-kappaB cascade	nucleus					0	Lung NSC(42;0.015)		Epithelial(11;1.19e-05)|all cancers(11;6.57e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000153)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			AGACAAAGAGGGTGGGGTGGG	0.582													34	113	---	---	---	---	PASS
TUBG1	7283	broad.mit.edu	37	17	40765980	40765980	+	Silent	SNP	C	T	T	rs145699955		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40765980C>T	uc002ian.2	+	8	1205	c.807C>T	c.(805-807)CTC>CTT	p.L269L		NM_001070	NP_001061	P23258	TBG1_HUMAN	tubulin, gamma 1	269					G2/M transition of mitotic cell cycle|meiotic spindle organization|protein polymerization	condensed nuclear chromosome|cytosol|gamma-tubulin complex|polar microtubule	GTP binding|GTPase activity|protein binding|structural constituent of cytoskeleton			ovary(1)	1		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.129)		TCCACTTCCTCATGACCGGCT	0.632													31	109	---	---	---	---	PASS
NAT9	26151	broad.mit.edu	37	17	72769778	72769778	+	Missense_Mutation	SNP	A	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72769778A>G	uc002jlq.2	-	3	201	c.127T>C	c.(127-129)TCG>CCG	p.S43P	NAT9_uc002jlr.2_Missense_Mutation_p.S42P|TMEM104_uc010wrf.1_5'Flank|TMEM104_uc010wrg.1_5'Flank|TMEM104_uc002jls.3_5'Flank|TMEM104_uc010dfx.2_5'Flank	NM_015654	NP_056469	Q9BTE0	NAT9_HUMAN	N-acetyltransferase 9	43	N-acetyltransferase.					protein complex	N-acetyltransferase activity				0						AGCGGCTCCGAGGCTGTCAAA	0.592													25	103	---	---	---	---	PASS
FHOD3	80206	broad.mit.edu	37	18	34156435	34156435	+	Missense_Mutation	SNP	A	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34156435A>G	uc002kzt.1	+	6	630	c.533A>G	c.(532-534)TAT>TGT	p.Y178C	FHOD3_uc002kzr.1_Missense_Mutation_p.Y178C|FHOD3_uc002kzs.1_Missense_Mutation_p.Y178C|FHOD3_uc002kzu.1_Missense_Mutation_p.Y3C	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	178	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				ATTATGTTGTATGTGGATGGA	0.368													28	85	---	---	---	---	PASS
FHOD3	80206	broad.mit.edu	37	18	34192014	34192014	+	Nonsense_Mutation	SNP	A	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34192014A>T	uc002kzt.1	+	9	1010	c.913A>T	c.(913-915)AAA>TAA	p.K305*	FHOD3_uc002kzr.1_Nonsense_Mutation_p.K305*|FHOD3_uc002kzs.1_Nonsense_Mutation_p.K305*|FHOD3_uc002kzu.1_Nonsense_Mutation_p.K130*|FHOD3_uc010dmz.1_Nonsense_Mutation_p.K58*	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	305	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CTTGAACAAGAAAGGGACTGA	0.502													42	98	---	---	---	---	PASS
CHAF1A	10036	broad.mit.edu	37	19	4409322	4409322	+	Missense_Mutation	SNP	C	G	G			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4409322C>G	uc002mal.2	+	3	626	c.526C>G	c.(526-528)CTT>GTT	p.L176V		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	176	Binds to CBX1 chromo shadow domain.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGAGAGACCCTTTCAGACAT	0.567								Chromatin_Structure					43	99	---	---	---	---	PASS
TYK2	7297	broad.mit.edu	37	19	10468695	10468695	+	Silent	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10468695G>A	uc002moc.3	-	16	2673	c.2295C>T	c.(2293-2295)GGC>GGT	p.G765G	TYK2_uc010dxe.2_Silent_p.G580G|TYK2_uc002mod.2_Silent_p.G765G	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	765	Protein kinase 1.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			TGGAGAGGGCGCCCAGGCCCA	0.652													14	39	---	---	---	---	PASS
CACNA1A	773	broad.mit.edu	37	19	13325351	13325351	+	Nonsense_Mutation	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13325351G>A	uc010dze.2	-	39	6042	c.5806C>T	c.(5806-5808)CAG>TAG	p.Q1936*	CACNA1A_uc010xnd.1_Nonsense_Mutation_p.Q641*|CACNA1A_uc002mwx.3_Nonsense_Mutation_p.Q641*|CACNA1A_uc010dzc.2_Nonsense_Mutation_p.Q1461*|CACNA1A_uc002mwy.3_Nonsense_Mutation_p.Q1935*|CACNA1A_uc002mwv.3_Nonsense_Mutation_p.Q452*	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1936	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	AGCGTCTTCTGGGACAGATTG	0.587													5	37	---	---	---	---	PASS
CCDC61	729440	broad.mit.edu	37	19	46519960	46519960	+	Missense_Mutation	SNP	A	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46519960A>C	uc002pdw.2	+	11	1157	c.1157A>C	c.(1156-1158)CAG>CCG	p.Q386P	MIR769_hsa-mir-769|MI0003834_5'Flank	NM_001080402	NP_001073871			coiled-coil domain containing 61											ovary(1)	1		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00221)|GBM - Glioblastoma multiforme(486;0.0233)|Epithelial(262;0.164)		AGGCAGCAGCAGCGGAACCGC	0.672													7	18	---	---	---	---	PASS
HRC	3270	broad.mit.edu	37	19	49657389	49657389	+	Missense_Mutation	SNP	A	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49657389A>T	uc002pmv.2	-	1	1293	c.1106T>A	c.(1105-1107)GTC>GAC	p.V369D		NM_002152	NP_002143	P23327	SRCH_HUMAN	histidine rich calcium binding protein	369					muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			ovary(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		GCCATGGTGGACATGTTGGGG	0.547													37	108	---	---	---	---	PASS
C20orf26	26074	broad.mit.edu	37	20	20123553	20123553	+	Silent	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20123553G>A	uc002wru.2	+	9	988	c.912G>A	c.(910-912)TTG>TTA	p.L304L	C20orf26_uc010gcw.1_Silent_p.L258L|C20orf26_uc010zse.1_Silent_p.L304L|C20orf26_uc010zsf.1_Silent_p.L304L	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	304										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TCGAGGAGTTGCAGGAACCTG	0.488													5	24	---	---	---	---	PASS
WFDC5	149708	broad.mit.edu	37	20	43739049	43739049	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43739049G>T	uc002xne.1	-	3	438	c.359C>A	c.(358-360)CCT>CAT	p.P120H		NM_145652	NP_663627	Q8TCV5	WFDC5_HUMAN	WAP four-disulfide core domain 5 precursor	120	WAP 2.					extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				ACCTCTGGCAGGATCCCGGCA	0.612													4	8	---	---	---	---	PASS
SNAI1	6615	broad.mit.edu	37	20	48600840	48600840	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48600840G>T	uc002xuz.2	+	2	632	c.562G>T	c.(562-564)GCC>TCC	p.A188S		NM_005985	NP_005976	O95863	SNAI1_HUMAN	snail 1 homolog	188	C2H2-type 2.				epithelial to mesenchymal transition|mesoderm formation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|zinc ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			CTGCGGGAAGGCCTTCTCTAG	0.612													4	28	---	---	---	---	PASS
C20orf166	128826	broad.mit.edu	37	20	61167749	61167749	+	Silent	SNP	G	A	A			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61167749G>A	uc011aaj.1	+	4	998	c.219G>A	c.(217-219)CAG>CAA	p.Q73Q		NM_178463	NP_848558	Q9H1L0	CT166_HUMAN	hypothetical protein LOC128826	73											0	Breast(26;1.04e-08)		BRCA - Breast invasive adenocarcinoma(19;7.17e-06)			CTCAGCCCCAGCCCCACAGTG	0.522													47	59	---	---	---	---	PASS
TRIOBP	11078	broad.mit.edu	37	22	38130449	38130449	+	Missense_Mutation	SNP	G	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38130449G>C	uc003atr.2	+	9	4377	c.4106G>C	c.(4105-4107)AGC>ACC	p.S1369T	TRIOBP_uc003atu.2_Missense_Mutation_p.S1197T	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1369					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ACCCGGCGGAGCCAAGCAGAG	0.657													8	16	---	---	---	---	PASS
KDM5C	8242	broad.mit.edu	37	X	53239905	53239905	+	Missense_Mutation	SNP	G	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53239905G>C	uc004drz.2	-	11	2069	c.1536C>G	c.(1534-1536)TGC>TGG	p.C512W	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.C445W|KDM5C_uc004dsa.2_Missense_Mutation_p.C511W	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	512	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						CAATATGCCAGCAAAAGGCTG	0.537			N|F|S		clear cell renal carcinoma								20	19	---	---	---	---	PASS
KIAA1210	57481	broad.mit.edu	37	X	118222879	118222879	+	Missense_Mutation	SNP	T	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:118222879T>C	uc004era.3	-	11	2314	c.2314A>G	c.(2314-2316)AGG>GGG	p.R772G		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	772										ovary(4)|skin(1)	5						TCAGGCTTCCTTGAGGACTGA	0.478													31	31	---	---	---	---	PASS
TARDBP	23435	broad.mit.edu	37	1	11080808	11080808	+	Intron	DEL	A	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11080808delA	uc001art.2	+						TARDBP_uc010oap.1_Intron	NM_007375	NP_031401	Q13148	TADBP_HUMAN	TAR DNA binding protein						3'-UTR-mediated mRNA stabilization|cell death|mRNA processing|negative regulation by host of viral transcription|RNA splicing|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0578)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.37e-07)|COAD - Colon adenocarcinoma(227;7.38e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000299)|Kidney(185;0.000754)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)		attaaaatacaaaaaaaaaaa	0.000													4	2	---	---	---	---	
THRAP3	9967	broad.mit.edu	37	1	36759241	36759242	+	Intron	INS	-	TGTGTGTG	TGTGTGTG	rs57825127		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36759241_36759242insTGTGTGTG	uc001cae.3	+						THRAP3_uc001caf.3_Intron	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3						androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GAACCTGGGACtgtgtgtgtgt	0.277			T	USP6	aneurysmal bone cysts								3	3	---	---	---	---	
FUBP1	8880	broad.mit.edu	37	1	78415121	78415121	+	Intron	DEL	A	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78415121delA	uc001dii.2	-						FUBP1_uc001dih.3_Intron|FUBP1_uc010orm.1_Intron	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein						transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						CTTGTTGACCAAAAAAAAAAA	0.313													5	3	---	---	---	---	
TTLL7	79739	broad.mit.edu	37	1	84413867	84413868	+	Intron	INS	-	ACAC	ACAC	rs145565825	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84413867_84413868insACAC	uc001djc.2	-						TTLL7_uc001djb.2_Intron|TTLL7_uc001djd.2_Intron|TTLL7_uc001dje.2_Intron|TTLL7_uc001djf.2_Intron|TTLL7_uc001djg.2_Intron	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7						cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		Gacacacacaaacacacacaca	0.144													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	212722886	212722889	+	IGR	DEL	GAAG	-	-	rs10546377		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:212722886_212722889delGAAG								NENF (103167 upstream) : ATF3 (15808 downstream)																							gaaggaagaagaaggaaggaagga	0.103													4	2	---	---	---	---	
FMN2	56776	broad.mit.edu	37	1	240255569	240255571	+	In_Frame_Del	DEL	GGC	-	-	rs35817759		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240255569_240255571delGGC	uc010pyd.1	+	1	385_387	c.160_162delGGC	c.(160-162)GGCdel	p.G59del	FMN2_uc010pye.1_In_Frame_Del_p.G59del	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	59					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GGGGGGAgggggcggcggcggcg	0.557													7	6	---	---	---	---	
TTC15	51112	broad.mit.edu	37	2	3482831	3482832	+	Intron	INS	-	G	G	rs140756219	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3482831_3482832insG	uc002qxm.1	+						TTC15_uc002qxn.1_Intron|TTC15_uc010ewm.1_Intron	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15								binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		AGGCAGTGGCTGTGGCCCTTAG	0.634													4	2	---	---	---	---	
NOL10	79954	broad.mit.edu	37	2	10795329	10795330	+	Intron	INS	-	T	T	rs1017146	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10795329_10795330insT	uc002raq.2	-						NOL10_uc010yje.1_Intron|NOL10_uc010yjf.1_Intron|NOL10_uc002rap.2_Intron|NOL10_uc002rar.2_Intron	NM_024894	NP_079170	Q9BSC4	NOL10_HUMAN	nucleolar protein 10							nucleolus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.207)		gtgagattctgcccaaaaaaaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	73956940	73956941	+	IGR	INS	-	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73956940_73956941insT								NAT8B (28473 upstream) : TPRKB (16 downstream)																							cgtgcctggccTTTTTTTTTTT	0.109													4	2	---	---	---	---	
YSK4	80122	broad.mit.edu	37	2	135779040	135779043	+	Intron	DEL	ACAT	-	-	rs147357674	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135779040_135779043delACAT	uc002tue.1	-						YSK4_uc010fne.1_Intron|YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Intron|YSK4_uc010zbg.1_Intron|YSK4_uc002tui.3_Intron	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1								ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		agacacacacacatacacacacac	0.108													4	2	---	---	---	---	
GALNT3	2591	broad.mit.edu	37	2	166647766	166647767	+	Intron	DEL	TG	-	-	rs112875311		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166647766_166647767delTG	uc010fph.1	-						GALNT3_uc010fpi.1_Intron|GALNT3_uc002udi.2_Intron	NM_004482	NP_004473	Q14435	GALT3_HUMAN	polypeptide N-acetylgalactosaminyltransferase 3						protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	Golgi cisterna membrane|integral to membrane|membrane fraction|nucleus|perinuclear region of cytoplasm	calcium ion binding|manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(2)|ovary(1)	3						ggtgtgtgcctgtgtgtgtgtg	0.243													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	6702360	6702361	+	Intron	DEL	AC	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:6702360_6702361delAC	uc003bqj.1	+											Homo sapiens clone P1 NTera2D1 teratocarcinoma mRNA.																		gtacacacatacacacacacac	0.054													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	81882173	81882174	+	IGR	INS	-	TTCCTTCC	TTCCTTCC			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:81882173_81882174insTTCCTTCC								GBE1 (71223 upstream) : None (None downstream)																							ttatcttccttttccttccttc	0.074													5	3	---	---	---	---	
CBLB	868	broad.mit.edu	37	3	105389251	105389251	+	Intron	DEL	A	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:105389251delA	uc003dwc.2	-						CBLB_uc003dwa.2_Intron|CBLB_uc011bhi.1_Intron	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral						cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						TGATTGGCTGAAGAAAAAAAT	0.299			Mis S		AML								12	21	---	---	---	---	
C3orf15	89876	broad.mit.edu	37	3	119459682	119459683	+	Intron	INS	-	TG	TG	rs57901016		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119459682_119459683insTG	uc003ede.3	+						C3orf15_uc010hqz.2_Intron|C3orf15_uc011bjd.1_Intron|C3orf15_uc011bje.1_Intron	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha							mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		CTGTCAGCATTtgtgtgtgtgt	0.168													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	133221110	133221115	+	IGR	DEL	GGGAAG	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133221110_133221115delGGGAAG								BFSP2 (27054 upstream) : CDV3 (71319 downstream)																							gggaagggaagggaagggaaggaagg	0.000													4	2	---	---	---	---	
KY	339855	broad.mit.edu	37	3	134327334	134327337	+	Intron	DEL	CACT	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:134327334_134327337delCACT	uc010hty.2	-						KY_uc011blw.1_Intron|KY_uc011blx.1_Intron|KY_uc003eqr.1_Frame_Shift_Del_p.E181fs	NM_178554	NP_848649	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase							cytoskeleton|Z disc	peptidase activity			ovary(2)	2						CAGCAGCCTCCACTCATCCACATG	0.578													2	5	---	---	---	---	
CPB1	1360	broad.mit.edu	37	3	148562685	148562685	+	Intron	DEL	A	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148562685delA	uc003ewl.2	+							NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein						proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			TAAAAGCACCAAAAAAAAAAA	0.139													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	28522620	28522621	+	IGR	INS	-	C	C	rs5857087		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:28522620_28522621insC								None (None upstream) : None (None downstream)																							ccttccttccttccttcctctc	0.129													6	3	---	---	---	---	
TBCK	93627	broad.mit.edu	37	4	107092559	107092560	+	Intron	INS	-	A	A	rs142249370	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:107092559_107092560insA	uc010ilv.2	-						TBCK_uc003hyb.2_Intron|TBCK_uc003hye.2_Intron|TBCK_uc003hyc.2_Intron|TBCK_uc003hyd.2_Intron|TBCK_uc003hyf.2_Intron	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like							intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						AAAATGTCAGTAAAAAAAACAA	0.233													2	5	---	---	---	---	
CASP6	839	broad.mit.edu	37	4	110610481	110610484	+	3'UTR	DEL	ATTA	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:110610481_110610484delATTA	uc003hzn.1	-	7					CASP6_uc003hzo.1_3'UTR	NM_001226	NP_001217	P55212	CASP6_HUMAN	caspase 6 isoform alpha preproprotein						cellular component disassembly involved in apoptosis|induction of apoptosis|proteolysis	cytosol|nucleoplasm	cysteine-type endopeptidase activity|protein binding			ovary(1)|breast(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000171)		GATAGCCTCTATTAATTAATTAGA	0.255													179	86	---	---	---	---	
METTL14	57721	broad.mit.edu	37	4	119613381	119613382	+	Intron	INS	-	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:119613381_119613382insT	uc003icf.2	+						METTL14_uc003icg.2_Intron	NM_020961	NP_066012	Q9HCE5	MTL14_HUMAN	methyltransferase like 14							nucleus	mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity				0						cttttcttttcttttttttttt	0.139													7	4	---	---	---	---	
CDH12	1010	broad.mit.edu	37	5	21915931	21915932	+	Intron	INS	-	TG	TG	rs144326750	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:21915931_21915932insTG	uc010iuc.2	-						CDH12_uc011cno.1_Intron|CDH12_uc003jgk.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						ATCATTtgtgctgtgtgtgtgt	0.312										HNSCC(59;0.17)			4	2	---	---	---	---	
CCDC125	202243	broad.mit.edu	37	5	68599933	68599933	+	Intron	DEL	T	-	-	rs35098133		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68599933delT	uc003jvv.1	-						CCDC125_uc003jvx.1_Intron|CCDC125_uc003jvy.1_Intron|CCDC125_uc003jvw.2_Intron	NM_176816	NP_789786	Q86Z20	CC125_HUMAN	coiled-coil domain containing 125							cytoplasm					0		Lung NSC(167;7.26e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.2e-56)|Epithelial(20;2.31e-52)|all cancers(19;5.85e-48)|Lung(70;0.0183)		GTGGTAAGAAttttttttttt	0.129													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	77965489	77965490	+	IGR	INS	-	AAAGA	AAAGA	rs140350170	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:77965489_77965490insAAAGA								LHFPL2 (20841 upstream) : ARSB (107549 downstream)																							gaaaggaaaggaaagaaaagaa	0.158													4	2	---	---	---	---	
GRXCR2	643226	broad.mit.edu	37	5	145252038	145252038	+	Intron	DEL	A	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145252038delA	uc003lns.1	-							NM_001080516	NP_001073985	A6NFK2	GRCR2_HUMAN	glutaredoxin, cysteine rich 2												0						TTTACCCCAGAAATATTCGTC	0.383													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	161266901	161266902	+	IGR	INS	-	TCTTTCTT	TCTTTCTT	rs10626981		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:161266901_161266902insTCTTTCTT								GABRA6 (137303 upstream) : GABRA1 (7295 downstream)																							ttctttctttctctttctttct	0.000													4	2	---	---	---	---	
FAM153B	202134	broad.mit.edu	37	5	175530031	175530031	+	Intron	DEL	G	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175530031delG	uc003mdk.2	+							NM_001079529	NP_001072997	P0C7A2	F153B_HUMAN	hypothetical protein LOC202134											ovary(1)	1	all_cancers(89;0.00406)|Renal(175;0.000269)|Lung NSC(126;0.0103)|all_lung(126;0.0164)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Kidney(146;0.0965)		CCTGCACTGCGTGGTGTGCAC	0.507													8	4	---	---	---	---	
GSTA4	2941	broad.mit.edu	37	6	52847699	52847702	+	Intron	DEL	GAGC	-	-	rs72138999	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52847699_52847702delGAGC	uc003pbc.2	-						GSTA4_uc003pbd.2_Intron|GSTA4_uc003pbe.2_Intron|GSTA4_uc003pbf.2_Intron	NM_001512	NP_001503	O15217	GSTA4_HUMAN	glutathione S-transferase alpha 4						glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity|protein homodimerization activity				0	Lung NSC(77;0.103)				Glutathione(DB00143)	gagagagagagagcgagagagaga	0.260													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	63162135	63162136	+	IGR	INS	-	AA	AA			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:63162135_63162136insAA								KHDRBS2 (166035 upstream) : LGSN (823721 downstream)																							cacacacacacacacacTGTGT	0.045													4	2	---	---	---	---	
TXNDC3	51314	broad.mit.edu	37	7	37890204	37890205	+	Intron	DEL	TA	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37890204_37890205delTA	uc003tfn.2	+							NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3						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						TAGACTTTGTTATTTCATAAAT	0.421									Kartagener_syndrome				86	37	---	---	---	---	
STAG3L2	442582	broad.mit.edu	37	7	74300557	74300564	+	Frame_Shift_Del	DEL	AGAGCTCC	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:74300557_74300564delAGAGCTCC	uc003ubj.3	-	5	625_632	c.243_250delGGAGCTCT	c.(241-252)CTGGAGCTCTTCfs	p.L81fs	STAG3L2_uc011kfj.1_RNA	NM_001025202	NP_001020373	P0CL84	ST3L2_HUMAN	STAG3-like	81_84	SCD.					nucleus	binding				0						CGGCCAGTGAAGAGCTCCAGGCGTGCGG	0.572													7	4	---	---	---	---	
SRPK2	6733	broad.mit.edu	37	7	105037221	105037222	+	Intron	INS	-	AGAAAG	AGAAAG	rs148945290	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:105037221_105037222insAGAAAG	uc003vcw.1	-							NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2						angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						gagagaaagaaagagagagaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	36993454	36993455	+	IGR	INS	-	AC	AC	rs139696297	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36993454_36993455insAC								KCNU1 (199813 upstream) : ZNF703 (559846 downstream)																							GTATCAATAAAacacacacaca	0.361													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	62726244	62726251	+	IGR	DEL	TTTCTCTT	-	-	rs7007865	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62726244_62726251delTTTCTCTT								ASPH (99045 upstream) : NKAIN3 (435250 downstream)																							cctttctttctttctcttccttccttcc	0.000													4	2	---	---	---	---	
C8orf45	157777	broad.mit.edu	37	8	67808959	67808959	+	Intron	DEL	A	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67808959delA	uc003xwz.3	+						C8orf45_uc011lev.1_Intron|C8orf45_uc011lew.1_Intron|C8orf45_uc011lex.1_Intron|C8orf45_uc003xwy.3_Intron	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex						DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)			aattatttCCAAATTGTGAAA	0.204													105	53	---	---	---	---	
MTDH	92140	broad.mit.edu	37	8	98703916	98703917	+	Intron	DEL	TG	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98703916_98703917delTG	uc003yhz.2	+						MTDH_uc010mbf.2_Intron	NM_178812	NP_848927	Q86UE4	LYRIC_HUMAN	metadherin						lipopolysaccharide-mediated signaling pathway|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of angiogenesis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein kinase B signaling cascade	apical plasma membrane|endoplasmic reticulum membrane|integral to membrane|intercellular canaliculus|nuclear body|nuclear membrane|nucleolus|perinuclear region of cytoplasm|tight junction	NF-kappaB binding|RNA polymerase II transcription factor binding|transcription coactivator activity			liver(1)|central_nervous_system(1)	2	Breast(36;2.56e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.178)			CAGCTTAATTtgtgtgtgtgtg	0.252													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	138676615	138676618	+	IGR	DEL	CCTT	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138676615_138676618delCCTT								None (None upstream) : FAM135B (465650 downstream)																							tctctctctcccttccttccttcc	0.270													3	4	---	---	---	---	
CNTNAP3	79937	broad.mit.edu	37	9	39107309	39107310	+	Intron	INS	-	GGAA	GGAA			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:39107309_39107310insGGAA	uc004abi.2	-						CNTNAP3_uc004abj.2_Intron|CNTNAP3_uc011lqr.1_Intron|CNTNAP3_uc004abk.1_Intron	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor						cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		ggagggagtggggaaggaagga	0.035													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	44084401	44084402	+	IGR	INS	-	ATCTT	ATCTT			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:44084401_44084402insATCTT								FAM75A6 (453671 upstream) : FAM27C (905834 downstream)																							TAAAGACTATATATAAAAATAA	0.277													4	6	---	---	---	---	
TBC1D2	55357	broad.mit.edu	37	9	100972081	100972084	+	Intron	DEL	TTTC	-	-	rs146750400		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100972081_100972084delTTTC	uc011lvb.1	-						TBC1D2_uc004ayp.2_Intron|TBC1D2_uc004ayq.2_Intron|TBC1D2_uc004ayr.2_Intron|TBC1D2_uc004ayo.3_Intron	NM_018421	NP_060891	Q9BYX2	TBD2A_HUMAN	TBC1 domain family, member 2							cell junction|cytoplasmic membrane-bounded vesicle|nucleus	Rab GTPase activator activity			ovary(3)	3		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.55e-37)		ttcctttctttttctttctttctt	0.054													4	2	---	---	---	---	
WDR34	89891	broad.mit.edu	37	9	131397627	131397627	+	Intron	DEL	A	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131397627delA	uc004bvq.1	-						WDR34_uc004bvs.1_Intron|WDR34_uc004bvr.1_Intron	NM_052844	NP_443076	Q96EX3	WDR34_HUMAN	WD repeat domain 34							cytoplasm				central_nervous_system(2)|skin(1)	3						CTCTTCCAGGAAAAAAAAAAA	0.622											OREG0019522	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	3	---	---	---	---	
KIAA1217	56243	broad.mit.edu	37	10	24722235	24722241	+	Intron	DEL	TTTTTTG	-	-	rs10582246		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24722235_24722241delTTTTTTG	uc001iru.3	+						KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irv.1_Intron|KIAA1217_uc010qda.1_Intron	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1						embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						TTTAGAGTGtttttttgttttttgttt	0.246													4	2	---	---	---	---	
YME1L1	10730	broad.mit.edu	37	10	27434230	27434231	+	Intron	INS	-	A	A	rs117799729		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27434230_27434231insA	uc001iti.2	-						YME1L1_uc001itj.2_Intron|YME1L1_uc010qdl.1_Intron|YME1L1_uc009xkv.2_Intron	NM_139312	NP_647473	Q96TA2	YMEL1_HUMAN	YME1-like 1 isoform 1						protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1						AAAAAAAAAACAAAAAAAAAAC	0.158													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42385707	42385722	+	IGR	DEL	AATGGAATCATCATTA	-	-	rs33914712		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42385707_42385722delAATGGAATCATCATTA								None (None upstream) : LOC441666 (441593 downstream)																							aatggaatcgaatggaatcatcattaaatggaatca	0.042													4	2	---	---	---	---	
DDX50	79009	broad.mit.edu	37	10	70689049	70689050	+	Intron	DEL	CT	-	-	rs71187036		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70689049_70689050delCT	uc001jou.2	+						DDX50_uc010qjc.1_Intron	NM_024045	NP_076950	Q9BQ39	DDX50_HUMAN	nucleolar protein GU2							nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1						tccttccttcctctctctctct	0.015													4	3	---	---	---	---	
AGAP11	119385	broad.mit.edu	37	10	88767684	88767686	+	Intron	DEL	TCT	-	-	rs72036564		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:88767684_88767686delTCT	uc001kee.2	+						AGAP11_uc001kef.2_Intron	NM_133447	NP_597704	Q8TF27	AGA11_HUMAN	ankyrin repeat and GTPase domain Arf GTPase						regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						AGAAAATGTATCttttttttttt	0.177													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	24207157	24207157	+	IGR	DEL	G	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:24207157delG								None (None upstream) : LUZP2 (311399 downstream)																							agggaaggaagggaaggaagg	0.000													4	2	---	---	---	---	
DIXDC1	85458	broad.mit.edu	37	11	111866443	111866444	+	Intron	DEL	AC	-	-	rs144639179		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:111866443_111866444delAC	uc001pml.2	+						DIXDC1_uc001pmm.2_Intron|DIXDC1_uc001pmn.2_Intron|DIXDC1_uc010rwq.1_Intron	NM_001037954	NP_001033043	Q155Q3	DIXC1_HUMAN	DIX domain containing 1 isoform a						multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytosol|focal adhesion	actin binding|gamma-tubulin binding|signal transducer activity			ovary(1)	1		all_cancers(61;7.58e-15)|all_epithelial(67;5.42e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;2.99e-07)|BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|all cancers(92;6.25e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0548)		AGTGGAACTGACTATTCATCAT	0.396													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	6403425	6403426	+	IGR	INS	-	GGAG	GGAG	rs145216262	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6403425_6403426insGGAG								CD9 (55998 upstream) : PLEKHG6 (16176 downstream)																							gagggagggaaggagggaggga	0.134													4	5	---	---	---	---	
GUCY2C	2984	broad.mit.edu	37	12	14805097	14805098	+	Intron	INS	-	TATTTATT	TATTTATT	rs139251359	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14805097_14805098insTATTTATT	uc001rcd.2	-							NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor						intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						ttgaTTTTTTAtatttatttat	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	65904944	65904946	+	IGR	DEL	TCC	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:65904944_65904946delTCC								MSRB3 (44264 upstream) : RPSAP52 (246857 downstream)																							CCACCCCCTTtcctcctcctcct	0.374													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	74669120	74669120	+	Intron	DEL	T	-	-	rs113849001		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:74669120delT	uc009zrx.1	-						uc001sxc.2_Intron					Homo sapiens cDNA clone IMAGE:3926153, partial cds.																		TTTTTTGGGGTTTTTTTTTTT	0.303													4	2	---	---	---	---	
SRRM4	84530	broad.mit.edu	37	12	119560098	119560113	+	Intron	DEL	AGGAAGGAAGGAAGGA	-	-	rs146974381	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:119560098_119560113delAGGAAGGAAGGAAGGA	uc001txa.1	+							NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein						cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						gcaggaaggcaggaaggaaggaaggaaggaaggaag	0.218													4	3	---	---	---	---	
CLIP1	6249	broad.mit.edu	37	12	122801517	122801517	+	Intron	DEL	A	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122801517delA	uc001ucg.1	-						CLIP1_uc001uch.1_Intron|CLIP1_uc001uci.1_Intron|CLIP1_uc001ucj.1_Intron	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a						mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		AGTCACTCGCAAAAAAAAAAA	0.308													4	2	---	---	---	---	
CENPJ	55835	broad.mit.edu	37	13	25457640	25457641	+	Intron	INS	-	TT	TT	rs151060650	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25457640_25457641insTT	uc001upt.3	-						CENPJ_uc010tdf.1_Intron|CENPJ_uc010aae.2_Intron|CENPJ_uc010aaf.2_Intron	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J						cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		TCCCTATACAATTGTAACTTTC	0.312													5	4	---	---	---	---	
STARD13	90627	broad.mit.edu	37	13	33700058	33700059	+	Intron	INS	-	TTCAAATTAAATA	TTCAAATTAAATA	rs149849652	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:33700058_33700059insTTCAAATTAAATA	uc001uuw.2	-						STARD13_uc001uuu.2_Intron|STARD13_uc001uuv.2_Intron|STARD13_uc001uux.2_Intron|STARD13_uc010tec.1_Intron	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		GACATGTCTTGTTCAAATTAAA	0.416													6	3	---	---	---	---	
COG3	83548	broad.mit.edu	37	13	46060474	46060475	+	Intron	INS	-	GGAGA	GGAGA	rs113621277		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46060474_46060475insGGAGA	uc001vak.2	+						COG3_uc010tfu.1_Intron|COG3_uc001vai.2_Intron|COG3_uc001vaj.1_Intron|COG3_uc010tfv.1_Intron|COG3_uc010aci.2_Intron	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3						ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		agacgggagacgggagagggag	0.163													6	4	---	---	---	---	
LPCAT4	254531	broad.mit.edu	37	15	34656628	34656628	+	Intron	DEL	T	-	-	rs10718217		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34656628delT	uc001zig.2	-						LPCAT4_uc010bav.1_Intron	NM_153613	NP_705841	Q643R3	LPCT4_HUMAN	lysophosphatidylcholine acyltransferase 4						phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|calcium ion binding				0						tttttttttctgttgttgttg	0.199													4	6	---	---	---	---	
SECISBP2L	9728	broad.mit.edu	37	15	49319806	49319807	+	Intron	DEL	TA	-	-	rs7177172	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49319806_49319807delTA	uc001zxe.1	-						SECISBP2L_uc001zxd.1_Intron|SECISBP2L_uc010bep.1_Intron|SECISBP2L_uc010beq.1_Intron	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like											breast(1)|skin(1)	2						TAAACCTTATTAtttttttttt	0.129													4	2	---	---	---	---	
RPGRIP1L	23322	broad.mit.edu	37	16	53690516	53690516	+	Intron	DEL	A	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53690516delA	uc002ehp.2	-						RPGRIP1L_uc002eho.3_Intron|RPGRIP1L_uc010vgy.1_Intron|RPGRIP1L_uc010cbx.2_Intron|RPGRIP1L_uc010vgz.1_Intron	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a						negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				AAAATAAGGGAAAATAAGTTT	0.229													143	109	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	5620724	5620725	+	IGR	INS	-	TCCT	TCCT	rs150953364	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5620724_5620725insTCCT								NLRP1 (132892 upstream) : WSCD1 (351712 downstream)																							tccttctttcctccttccttcc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	16725606	16725607	+	RNA	INS	-	C	C			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16725606_16725607insC	uc002gqq.1	-	1		c.287_288insG								full-length cDNA clone CS0DI013YN06 of Placenta Cot 25-normalized of Homo sapiens (human).																		CGCCATAGCCGCCCCCCAGCCT	0.475													11	6	---	---	---	---	
CCL23	6368	broad.mit.edu	37	17	34340464	34340465	+	Intron	INS	-	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34340464_34340465insT	uc002hkt.1	-						CCL23_uc002hks.1_Intron	NM_145898	NP_665905	P55773	CCL23_HUMAN	small inducible cytokine A23 isoform CKbeta8						cell-cell signaling|cellular calcium ion homeostasis|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|inflammatory response|negative regulation of cell proliferation	extracellular space	chemokine activity|heparin binding				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)	Treprostinil(DB00374)	GTTTTTTTTTCTTTTTTTTTTC	0.510													4	2	---	---	---	---	
ABCC3	8714	broad.mit.edu	37	17	48755715	48755715	+	Intron	DEL	A	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48755715delA	uc002isl.2	+						ABCC3_uc002isn.2_5'Flank	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3						bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	GGACTGTGAGAAAAAAAAAAA	0.478													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	62932555	62932556	+	IGR	DEL	GT	-	-	rs35142297		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62932555_62932556delGT								LRRC37A3 (16969 upstream) : AMZ2P1 (30112 downstream)																							gtgtgtgttcgtgtgtgtgtgt	0.238													5	3	---	---	---	---	
EXOC7	23265	broad.mit.edu	37	17	74090830	74090830	+	Intron	DEL	T	-	-	rs35625794		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74090830delT	uc002jqs.2	-						EXOC7_uc010dgv.1_Intron|EXOC7_uc002jqq.2_Intron|EXOC7_uc010wsw.1_Intron|EXOC7_uc010wsx.1_Intron|EXOC7_uc002jqr.2_Intron|EXOC7_uc010wsv.1_Intron|EXOC7_uc002jqu.2_Intron	NM_001145297	NP_001138769	Q9UPT5	EXOC7_HUMAN	exocyst complex component 7 isoform 4						exocytosis|protein transport	centriolar satellite|cytosol|exocyst|plasma membrane	protein binding				0			LUSC - Lung squamous cell carcinoma(166;0.187)			TTTCAAAGtcttttttttttt	0.234													5	3	---	---	---	---	
C18orf34	374864	broad.mit.edu	37	18	30931112	30931113	+	Intron	INS	-	TG	TG	rs143702049	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30931112_30931113insTG	uc002kxn.2	-						C18orf34_uc010xbr.1_Intron|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Intron|C18orf34_uc002kxp.2_Intron	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1											ovary(1)	1						actgatcatgatgtgtgtgtgt	0.045													4	3	---	---	---	---	
ATP8B1	5205	broad.mit.edu	37	18	55320120	55320121	+	Intron	INS	-	T	T			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55320120_55320121insT	uc002lgw.2	-						uc002lgu.1_Intron|uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1						ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				TATTTGTGGTGTGCAGAGCTCA	0.337									Byler_disease				9	6	---	---	---	---	
AKAP8	10270	broad.mit.edu	37	19	15473194	15473195	+	Intron	INS	-	TT	TT	rs12980485		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15473194_15473195insTT	uc002nav.2	-						AKAP8_uc010dzy.2_Intron|AKAP8_uc010dzz.1_Intron|AKAP8_uc010xog.1_Intron	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8						signal transduction	nuclear matrix				ovary(1)|breast(1)	2						ctctccctctccccacggtctc	0.198													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	39476965	39476967	+	IGR	DEL	TCC	-	-	rs147522469	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39476965_39476967delTCC								FBXO17 (10585 upstream) : FBXO27 (37697 downstream)																							cttccttccttcctccttccttc	0.158													4	2	---	---	---	---	
PTPRT	11122	broad.mit.edu	37	20	41306344	41306344	+	Intron	DEL	C	-	-	rs2425514	by1000genomes	TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41306344delC	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				AACAAACAAACAAAAAAAACC	0.408													5	4	---	---	---	---	
IL10RB	3588	broad.mit.edu	37	21	34660710	34660711	+	Intron	DEL	AG	-	-	rs66834406		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34660710_34660711delAG	uc002yrk.1	+						IL10RB_uc002yrl.1_Intron	NM_000628	NP_000619	Q08334	I10R2_HUMAN	interleukin 10 receptor, beta precursor						immune response|inflammatory response	interleukin-28 receptor complex	protein binding|receptor activity				0						acacacacacagacacGCCTCT	0.401													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	37667354	37667354	+	IGR	DEL	A	-	-	rs71326671		TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37667354delA								DOPEY2 (783 upstream) : MORC3 (25133 downstream)																							TTTCTTCtttaaaaaaaaaaa	0.289													4	2	---	---	---	---	
RS1	6247	broad.mit.edu	37	X	18659978	18659978	+	3'UTR	DEL	A	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18659978delA	uc004cyo.2	-	6					CDKL5_uc004cym.2_Intron|CDKL5_uc004cyn.2_Intron	NM_000330	NP_000321	O15537	XLRS1_HUMAN	X-linked juvenile retinoschisis protein						cell adhesion|multicellular organismal development|response to stimulus|visual perception	extracellular space				ovary(2)	2	Hepatocellular(33;0.183)					GCTATATCTTAAAAAAAAAAA	0.413													4	2	---	---	---	---	
DOCK11	139818	broad.mit.edu	37	X	117752829	117752829	+	Intron	DEL	T	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117752829delT	uc004eqp.2	+						DOCK11_uc004eqq.2_Intron	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11						blood coagulation	cytosol	GTP binding			ovary(3)	3						TCATAAGTTGttttttttttg	0.134													4	2	---	---	---	---	
RBMY1A1	5940	broad.mit.edu	37	Y	23710117	23710117	+	Intron	DEL	T	-	-			TCGA-B0-5106-01A-01D-1421-08	TCGA-B0-5106-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:23710117delT	uc004fuq.3	+						RBMY1A1_uc010nxa.2_Intron|RBMY1A1_uc004fur.3_Intron|RBMY1A1_uc011nbd.1_Intron	NM_001006120	NP_001006120	Q15414	RBY1A_HUMAN	RNA binding motif protein, Y-linked, family 1,						mRNA processing|RNA splicing|spermatogenesis	nucleus	nucleotide binding|RNA binding				0						TTGAAAAGACTTTTTTTTTTT	0.338													4	2	---	---	---	---	
