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
CLCN6	1185	broad.mit.edu	37	1	11876768	11876768	+	Intron	SNP	G	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11876768G>T	uc001ate.3	+						CLCN6_uc009vne.1_3'UTR|CLCN6_uc009vnf.1_Intron|CLCN6_uc009vng.1_Intron|CLCN6_uc009vnh.1_Intron|CLCN6_uc010oat.1_Intron|CLCN6_uc010oau.1_Intron	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a						cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		GGGATGGTGGGCCATAGGGCT	0.493													11	223	---	---	---	---	PASS
NBPF1	55672	broad.mit.edu	37	1	16893800	16893800	+	Missense_Mutation	SNP	C	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16893800C>A	uc009vos.1	-	26	3826	c.2938G>T	c.(2938-2940)GAC>TAC	p.D980Y	NBPF1_uc009vot.1_Missense_Mutation_p.D363Y|NBPF1_uc001ayz.1_Missense_Mutation_p.D363Y|NBPF1_uc010oce.1_Missense_Mutation_p.D634Y	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	980	NBPF 6.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TCCAGTGAGTCCTGCAAGACT	0.478													9	566	---	---	---	---	PASS
CROCC	9696	broad.mit.edu	37	1	17256695	17256695	+	Missense_Mutation	SNP	G	A	A	rs140045815	byFrequency	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17256695G>A	uc001azt.2	+	5	683	c.614G>A	c.(613-615)CGG>CAG	p.R205Q	CROCC_uc009voy.1_Intron|CROCC_uc009voz.1_5'UTR	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	205	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		GAGCAGCAGCGGCTGAGGGTG	0.632													7	22	---	---	---	---	PASS
USP24	23358	broad.mit.edu	37	1	55638068	55638068	+	Silent	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55638068G>A	uc001cyg.3	-	3	348	c.348C>T	c.(346-348)CTC>CTT	p.L116L		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	228					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						GCACACCCAGGAGACCAGTGG	0.338													68	260	---	---	---	---	PASS
USP24	23358	broad.mit.edu	37	1	55642117	55642117	+	Splice_Site	SNP	C	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55642117C>A	uc001cyg.3	-	2	155	c.155_splice	c.e2-1	p.G52_splice		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24						ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						TCGGAAAGACCTTAGTAAAAT	0.323													72	253	---	---	---	---	PASS
RPL5	6125	broad.mit.edu	37	1	93298416	93298416	+	Intron	SNP	T	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:93298416T>G	uc001doz.2	+						RPL5_uc001dpa.2_Intron|RPL5_uc001dpb.2_5'UTR	NM_000969	NP_000960	P46777	RL5_HUMAN	ribosomal protein L5						endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	5S rRNA binding|protein binding|structural constituent of ribosome				0		all_lung(203;0.00265)|Lung NSC(277;0.0056)|all_neural(321;0.185)|Melanoma(281;0.192)|Glioma(108;0.203)		GBM - Glioblastoma multiforme(16;0.000305)|all cancers(265;0.000343)|Epithelial(280;0.0927)		TTGTGGCAGGTAATTTAGGCT	0.448													10	18	---	---	---	---	PASS
LCE4A	199834	broad.mit.edu	37	1	152681561	152681561	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152681561C>T	uc001fak.2	+	1	39	c.10C>T	c.(10-12)CAG>TAG	p.Q4*		NM_178356	NP_848133	Q5TA78	LCE4A_HUMAN	late cornified envelope 4A	4	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.116)			GATGTCCTGCCAGCAGAACCA	0.418													4	92	---	---	---	---	PASS
NEK7	140609	broad.mit.edu	37	1	198262086	198262086	+	Missense_Mutation	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:198262086T>C	uc001gun.3	+	8	928	c.601T>C	c.(601-603)TAT>CAT	p.Y201H		NM_133494	NP_598001	Q8TDX7	NEK7_HUMAN	NIMA-related kinase 7	201	Protein kinase.					cytoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|lung(1)|ovary(1)	4						TGGTACGCCTTATTACATGTC	0.323													6	690	---	---	---	---	PASS
TNNI1	7135	broad.mit.edu	37	1	201398087	201398087	+	RNA	SNP	A	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201398087A>T	uc001gwo.1	-	2		c.484T>A						P19237	TNNI1_HUMAN	Homo sapiens mRNA for troponin I (TNNI1 gene), alternative termination.						muscle filament sliding|regulation of striated muscle contraction	cytosol|troponin complex	actin binding|tropomyosin binding				0						TGAGACTTCAACAGCAAGTTT	0.303													3	5	---	---	---	---	PASS
TARBP1	6894	broad.mit.edu	37	1	234541769	234541769	+	Missense_Mutation	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:234541769G>A	uc001hwd.2	-	24	3869	c.3869C>T	c.(3868-3870)GCT>GTT	p.A1290V		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1290					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			AGCAACTAAAGCATACAGTCG	0.393													26	270	---	---	---	---	PASS
ARID4B	51742	broad.mit.edu	37	1	235345975	235345975	+	Silent	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235345975T>C	uc001hwq.2	-	20	2757	c.2259A>G	c.(2257-2259)GAA>GAG	p.E753E	ARID4B_uc001hwr.2_Silent_p.E667E|ARID4B_uc001hws.3_Silent_p.E667E|ARID4B_uc001hwp.2_RNA|ARID4B_uc001hwt.3_Silent_p.E434E	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	753	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			AACTGTTCTGTTCCTCCTTTG	0.348													7	419	---	---	---	---	PASS
ATP6V1E2	90423	broad.mit.edu	37	2	46739785	46739785	+	Silent	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46739785T>C	uc002ruy.2	-	2	1180	c.66A>G	c.(64-66)GAA>GAG	p.E22E	ATP6V1E2_uc002ruz.2_Silent_p.E22E	NM_080653	NP_542384	Q96A05	VATE2_HUMAN	ATPase, H+ transporting, lysosomal 31kDa, V1	22					cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting two-sector ATPase complex, catalytic domain	proton-transporting ATPase activity, rotational mechanism			ovary(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.151)			TCTCATTGGCTTCCTGCTCAA	0.498													6	306	---	---	---	---	PASS
MRPL19	9801	broad.mit.edu	37	2	75879752	75879752	+	Silent	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:75879752T>C	uc002snl.2	+	4	469	c.444T>C	c.(442-444)ACT>ACC	p.T148T	MRPL19_uc002snm.1_Silent_p.T148T	NM_014763	NP_055578	P49406	RM19_HUMAN	mitochondrial ribosomal protein L19 precursor	148					translation	mitochondrion|nuclear membrane|ribosome	structural constituent of ribosome				0						TTGGAGCTACTTTCATCCTTA	0.388													7	313	---	---	---	---	PASS
SULT1C2	6819	broad.mit.edu	37	2	108921709	108921709	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108921709A>G	uc002tdy.2	+	6	1037	c.584A>G	c.(583-585)GAG>GGG	p.E195G	SULT1C2_uc010ywp.1_Missense_Mutation_p.E110G|SULT1C2_uc002tdx.2_Missense_Mutation_p.E206G|SULT1C2_uc010ywq.1_Missense_Mutation_p.E209G	NM_001056	NP_001047	O00338	ST1C2_HUMAN	sulfotransferase family, cytosolic, 1C, member 1	195	PAPS (By similarity).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine metabolic process|sulfation|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	sulfotransferase activity			ovary(1)	1						CTCTTCTATGAGGACATAAAG	0.443													8	763	---	---	---	---	PASS
LOC401010	401010	broad.mit.edu	37	2	132201464	132201464	+	Missense_Mutation	SNP	C	T	T	rs113763307	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:132201464C>T	uc002tst.2	-	1	1004	c.538G>A	c.(538-540)GTC>ATC	p.V180I		NR_002826				SubName: Full=cDNA FLJ12694 fis, clone NT2RP1000358, highly similar to Homo sapiens mRNA; cDNA DKFZp564C186 (from clone DKFZp564C186);												0						TGCTTGAGGACGGGGCCAAGG	0.582													4	83	---	---	---	---	PASS
MIR663B	100302269	broad.mit.edu	37	2	133015522	133015522	+	5'Flank	SNP	C	A	A	rs142087763	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133015522C>A	hsa-mir-663b|MI0006336	-						NCRNA00164_uc002ttj.3_RNA																	0						CCTCGGCGGCCGGCCGGCGCA	0.682													3	26	---	---	---	---	PASS
PKP4	8502	broad.mit.edu	37	2	159537192	159537192	+	3'UTR	SNP	T	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:159537192T>G	uc002tzv.2	+	22					PKP4_uc002tzw.2_3'UTR|PKP4_uc002tzx.2_3'UTR|PKP4_uc002uaa.2_3'UTR|uc002uab.1_Intron|PKP4_uc002uac.2_3'UTR|PKP4_uc002uad.2_RNA	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a						cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						GGGTGTAGCATCAAGATGCCC	0.413										HNSCC(62;0.18)			100	91	---	---	---	---	PASS
ZSWIM2	151112	broad.mit.edu	37	2	187693068	187693068	+	Silent	SNP	A	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:187693068A>C	uc002upu.1	-	9	1585	c.1545T>G	c.(1543-1545)CCT>CCG	p.P515P		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	515					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			GAACAATAGGAGGAAGCAGTG	0.383													45	258	---	---	---	---	PASS
C2orf67	151050	broad.mit.edu	37	2	210893672	210893672	+	Missense_Mutation	SNP	T	C	C	rs112688964		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210893672T>C	uc002vds.2	-	11	2501	c.2293A>G	c.(2293-2295)AGA>GGA	p.R765G	C2orf67_uc002vdt.2_Missense_Mutation_p.R723G	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	765										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		CTCTCACTTCTCAATCTCCGT	0.368													7	544	---	---	---	---	PASS
VHL	7428	broad.mit.edu	37	3	10191590	10191590	+	Nonsense_Mutation	SNP	C	T	T	rs5030825		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10191590C>T	uc003bvc.2	+	3	796	c.583C>T	c.(583-585)CAG>TAG	p.Q195*	VHL_uc003bvd.2_Nonsense_Mutation_p.Q154*	NM_000551	NP_000542	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor isoform 1	195					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.Q195*(4)|p.Q195R(1)|p.P192fs*3(1)|p.Q195fs*20(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)		CCCAAATGTGCAGAAAGACCT	0.498		1	D|Mis|N|F|S		renal|hemangioma|pheochromocytoma	renal|hemangioma|pheochromocytoma			von_Hippel-Lindau_disease|Chuvash_Polycythemia_|Pheochromocytoma_(Adrenal)_Familial				22	65	---	---	---	---	PASS
NKTR	4820	broad.mit.edu	37	3	42679500	42679500	+	Silent	SNP	T	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42679500T>G	uc003clo.2	+	13	2451	c.2304T>G	c.(2302-2304)GTT>GTG	p.V768V	NKTR_uc003clm.1_Silent_p.V515V|NKTR_uc003clp.2_Silent_p.V515V|NKTR_uc011azp.1_Intron|NKTR_uc003clq.1_Silent_p.V658V|NKTR_uc003clr.1_Silent_p.V515V|NKTR_uc003cls.2_Silent_p.V468V	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	768	Arg/Ser-rich.				protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		AAAATAGCGTTTCACATAAAA	0.393													29	102	---	---	---	---	PASS
ZNF445	353274	broad.mit.edu	37	3	44489465	44489465	+	Missense_Mutation	SNP	C	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44489465C>A	uc003cnf.2	-	8	2046	c.1698G>T	c.(1696-1698)AAG>AAT	p.K566N	ZNF445_uc011azv.1_Missense_Mutation_p.K554N|ZNF445_uc011azw.1_Missense_Mutation_p.K566N	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	566					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		CAAGAAATTTCTTCTTAGCAT	0.448													23	70	---	---	---	---	PASS
SETD2	29072	broad.mit.edu	37	3	47143043	47143043	+	Missense_Mutation	SNP	C	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47143043C>A	uc003cqs.2	-	8	4973	c.4920G>T	c.(4918-4920)TGG>TGT	p.W1640C	SETD2_uc003cqv.2_Missense_Mutation_p.W1707C	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1640	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		CGTTCACAGTCCACTGAGATG	0.313			N|F|S|Mis		clear cell renal carcinoma								44	95	---	---	---	---	PASS
EAF2	55840	broad.mit.edu	37	3	121563324	121563324	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121563324A>G	uc003een.2	+	2	230	c.131A>G	c.(130-132)GAC>GGC	p.D44G	EAF2_uc003eeo.2_5'UTR	NM_018456	NP_060926	Q96CJ1	EAF2_HUMAN	ELL associated factor 2	44	Necessary for interaction with ELL.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	protein binding				0				GBM - Glioblastoma multiforme(114;0.0972)		GCTTCTATTGACACTTCTTCT	0.318													7	614	---	---	---	---	PASS
RAP2B	5912	broad.mit.edu	37	3	152880567	152880567	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:152880567A>G	uc003ezr.2	+	1	539	c.85A>G	c.(85-87)ATC>GTC	p.I29V		NM_002886	NP_002877	P61225	RAP2B_HUMAN	RAP2B, member of RAS oncogene family precursor	29					Rap protein signal transduction|regulation of protein tyrosine kinase activity	recycling endosome membrane	GTP binding|GTPase activity			lung(2)	2			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			GGGCTCCTTCATCGAGAAGTA	0.622													20	20	---	---	---	---	PASS
SERPINI2	5276	broad.mit.edu	37	3	167184865	167184865	+	Silent	SNP	G	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167184865G>T	uc003fer.1	-	2	514	c.456C>A	c.(454-456)ACC>ACA	p.T152T	SERPINI2_uc003fes.1_Silent_p.T162T|SERPINI2_uc003fet.1_Silent_p.T152T	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),	152					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						TTTCTACCCAGGTACTTATCA	0.333													5	455	---	---	---	---	PASS
NAALADL2	254827	broad.mit.edu	37	3	175345150	175345150	+	Silent	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:175345150C>T	uc003fit.2	+	11	1959	c.1872C>T	c.(1870-1872)TTC>TTT	p.F624F	NAALADL2_uc010hwy.1_Silent_p.F398F	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	624	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		ATCCCTCTTTCAACCTTCATG	0.373													7	518	---	---	---	---	PASS
RNF4	6047	broad.mit.edu	37	4	2498774	2498774	+	Missense_Mutation	SNP	A	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2498774A>C	uc003gfb.2	+	3	386	c.50A>C	c.(49-51)CAG>CCG	p.Q17P	RNF4_uc010ici.1_Missense_Mutation_p.Q17P|RNF4_uc010icj.2_Missense_Mutation_p.Q17P|RNF4_uc003gfc.2_Missense_Mutation_p.Q17P	NM_002938	NP_002929	P78317	RNF4_HUMAN	ring finger protein 4	17	Mediates interaction with TRPS1 (By similarity).				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|protein K63-linked ubiquitination|regulation of kinetochore assembly|regulation of spindle assembly|response to arsenic-containing substance	cytoplasm|PML body	androgen receptor binding|DNA binding|nucleosome binding|sequence-specific DNA binding transcription factor activity|SUMO polymer binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(65;0.241)				AGACAAGCTCAGAAGCGAACT	0.498													33	76	---	---	---	---	PASS
NOP14	8602	broad.mit.edu	37	4	2952002	2952002	+	Intron	SNP	A	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2952002A>C	uc003ggj.1	-						C4orf10_uc003ggh.2_RNA|C4orf10_uc003ggi.1_RNA|NOP14_uc010icp.2_Intron|NOP14_uc003ggk.3_Intron|NOP14_uc003ggl.2_Intron	NM_003703	NP_003694	P78316	NOP14_HUMAN	probable nucleolar complex protein 14						endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	mitochondrion|Noc4p-Nop14p complex|small-subunit processome	snoRNA binding			pancreas(1)	1						GGACCATCTCACAGCCACATC	0.552													13	45	---	---	---	---	PASS
UGT2B10	7365	broad.mit.edu	37	4	69693247	69693247	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69693247A>G	uc003hee.2	+	5	1313	c.1288A>G	c.(1288-1290)ACA>GCA	p.T430A	UGT2B10_uc011cam.1_Missense_Mutation_p.T346A	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	430					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						TGCACTGAAGACAGTAATTAA	0.388													6	346	---	---	---	---	PASS
PTPN13	5783	broad.mit.edu	37	4	87707062	87707062	+	Silent	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87707062T>C	uc003hpz.2	+	40	6798	c.6318T>C	c.(6316-6318)GGT>GGC	p.G2106G	PTPN13_uc003hpy.2_Silent_p.G2111G|PTPN13_uc003hqa.2_Silent_p.G2087G|PTPN13_uc003hqb.2_Silent_p.G1915G|PTPN13_uc003hqc.1_Silent_p.G472G	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	2106						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		ACTGCGATGGTTCACCTTTAC	0.358													6	346	---	---	---	---	PASS
MMRN1	22915	broad.mit.edu	37	4	90874205	90874205	+	Missense_Mutation	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:90874205C>T	uc003hst.2	+	8	3394	c.3323C>T	c.(3322-3324)ACG>ATG	p.T1108M	MMRN1_uc010iku.2_Missense_Mutation_p.T411M|MMRN1_uc011cds.1_Missense_Mutation_p.T850M	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	1108	C1q.				cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		GCATCTCATACGTATGGAATG	0.348													78	219	---	---	---	---	PASS
DNAJB14	79982	broad.mit.edu	37	4	100851669	100851669	+	Missense_Mutation	SNP	G	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:100851669G>T	uc003hvl.2	-	2	394	c.243C>A	c.(241-243)AGC>AGA	p.S81R	DNAJB14_uc003hvk.2_5'UTR|DNAJB14_uc010ili.2_Intron|DNAJB14_uc003hvm.2_Missense_Mutation_p.S81R	NM_001031723	NP_001026893	Q8TBM8	DJB14_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 14	81					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;4.59e-09)		TACCAGATGTGCTGTCCTTTG	0.413													5	457	---	---	---	---	PASS
TACR3	6870	broad.mit.edu	37	4	104577436	104577436	+	Missense_Mutation	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104577436G>A	uc003hxe.1	-	3	946	c.803C>T	c.(802-804)ACC>ATC	p.T268I		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	268	Helical; Name=5; (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)		TCCAACAATGGTGTATGTAAT	0.398													5	179	---	---	---	---	PASS
PRSS48	345062	broad.mit.edu	37	4	152212274	152212274	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:152212274A>G	uc011cif.1	+	5	656	c.656A>G	c.(655-657)GAT>GGT	p.D219G	PRSS48_uc011cig.1_Missense_Mutation_p.D76G	NM_183375	NP_899231	Q7RTY5	PRS48_HUMAN	epidermis-specific serine protease-like protein	219	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			large_intestine(1)	1						CCTTAGGGTGATTCTGGAGGG	0.433													89	254	---	---	---	---	PASS
LRRC14B	389257	broad.mit.edu	37	5	194972	194972	+	Missense_Mutation	SNP	C	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:194972C>G	uc003jal.1	+	2	1077	c.1049C>G	c.(1048-1050)ACC>AGC	p.T350S		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	350	LRR 3.									skin(1)	1						TACCCCTCGACCTTCTTCAGG	0.617													16	26	---	---	---	---	PASS
AFF4	27125	broad.mit.edu	37	5	132216807	132216807	+	Missense_Mutation	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132216807G>A	uc003kyd.2	-	21	3844	c.3436C>T	c.(3436-3438)CGT>TGT	p.R1146C	AFF4_uc011cxk.1_Missense_Mutation_p.R824C	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	1146					transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CGGGTATAACGAACTAGATCT	0.418													7	524	---	---	---	---	PASS
HSPA4	3308	broad.mit.edu	37	5	132424155	132424155	+	Missense_Mutation	SNP	G	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132424155G>T	uc003kyj.2	+	9	1326	c.1045G>T	c.(1045-1047)GCG>TCG	p.A349S		NM_002154	NP_002145	P34932	HSP74_HUMAN	heat shock 70kDa protein 4	349					cellular chaperone-mediated protein complex assembly|protein import into mitochondrial outer membrane|response to unfolded protein	cytoplasm|nucleus	ATP binding			lung(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ACGAATCCCTGCGGTAAAAGA	0.348													131	355	---	---	---	---	PASS
FAM153C	653316	broad.mit.edu	37	5	177469218	177469218	+	Missense_Mutation	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177469218C>T	uc011dge.1	+	8	428	c.227C>T	c.(226-228)CCG>CTG	p.P76L	FAM153C_uc003mig.1_Missense_Mutation_p.P76L	NM_001079527	NP_001072995			hypothetical protein LOC653316												0	all_cancers(89;0.00176)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCAGCCACACCGGCAAAGAGT	0.473													5	675	---	---	---	---	PASS
MDGA1	266727	broad.mit.edu	37	6	37603708	37603708	+	3'UTR	SNP	A	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37603708A>T	uc003onu.1	-	17						NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing						brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						AATGGGTCTCAATCCAGTCTC	0.507													6	13	---	---	---	---	PASS
ABCC10	89845	broad.mit.edu	37	6	43417778	43417778	+	Missense_Mutation	SNP	G	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43417778G>C	uc003ouy.1	+	22	4643	c.4428G>C	c.(4426-4428)CAG>CAC	p.Q1476H	ABCC10_uc003ouz.1_Missense_Mutation_p.Q1448H|ABCC10_uc010jyo.1_Missense_Mutation_p.Q582H	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	1476	ABC transporter 2.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			TGTTCCAGCAGCTGCTGCAGA	0.652													4	16	---	---	---	---	PASS
DST	667	broad.mit.edu	37	6	56357868	56357868	+	Missense_Mutation	SNP	A	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56357868A>T	uc003pdf.2	-	78	14085	c.14057T>A	c.(14056-14058)CTC>CAC	p.L4686H	DST_uc003pcz.3_Missense_Mutation_p.L4508H|DST_uc011dxj.1_Missense_Mutation_p.L4537H|DST_uc011dxk.1_Missense_Mutation_p.L4548H|DST_uc003pcy.3_Missense_Mutation_p.L4182H|DST_uc003pda.3_5'Flank	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6594					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TGCCAAGTTGAGAGCCTCTTC	0.423													117	293	---	---	---	---	PASS
HGC6.3	100128124	broad.mit.edu	37	6	168377019	168377019	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168377019A>G	uc010kks.1	-	1	601	c.314T>C	c.(313-315)TTC>TCC	p.F105S		NM_001129895	NP_001123367	Q9UM08	Q9UM08_HUMAN	hypothetical protein LOC100128124	105											0						TGGGGAGGAGAAGACAGTGGG	0.632													3	11	---	---	---	---	PASS
HGC6.3	100128124	broad.mit.edu	37	6	168377022	168377022	+	Missense_Mutation	SNP	A	G	G	rs112006230		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168377022A>G	uc010kks.1	-	1	598	c.311T>C	c.(310-312)GTC>GCC	p.V104A		NM_001129895	NP_001123367	Q9UM08	Q9UM08_HUMAN	hypothetical protein LOC100128124	104											0						GGAGGAGAAGACAGTGGGGGT	0.632													4	7	---	---	---	---	PASS
HGC6.3	100128124	broad.mit.edu	37	6	168377071	168377071	+	Missense_Mutation	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168377071G>A	uc010kks.1	-	1	549	c.262C>T	c.(262-264)CCC>TCC	p.P88S		NM_001129895	NP_001123367	Q9UM08	Q9UM08_HUMAN	hypothetical protein LOC100128124	88											0						AAGACAGTGGGGGTCATTCCC	0.642													3	13	---	---	---	---	PASS
CACNA2D1	781	broad.mit.edu	37	7	81635088	81635088	+	Missense_Mutation	SNP	C	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:81635088C>A	uc003uhr.1	-	17	1764	c.1508G>T	c.(1507-1509)CGT>CTT	p.R503L		NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	503	Extracellular (Potential).|Cache.					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	TACTGTAAAACGTGGTGTCAG	0.358													120	443	---	---	---	---	PASS
RELN	5649	broad.mit.edu	37	7	103197602	103197602	+	Silent	SNP	G	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103197602G>T	uc003vca.2	-	38	5779	c.5619C>A	c.(5617-5619)ACC>ACA	p.T1873T	RELN_uc010liz.2_Silent_p.T1873T	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1873					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ATCTCTCTGGGGTACCTAGGA	0.378													5	285	---	---	---	---	PASS
FLJ10661	286042	broad.mit.edu	37	8	8092007	8092007	+	RNA	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:8092007C>T	uc011kwt.1	+	4		c.375C>T			FLJ10661_uc010lrq.2_Intron|FLJ10661_uc003wsf.3_RNA	NR_024362				Homo sapiens cDNA FLJ60033 complete cds, highly similar to Protein FAM86A.												0						GCCCCCAGCACGAGGCTGTCC	0.438													3	31	---	---	---	---	PASS
SGCZ	137868	broad.mit.edu	37	8	14181641	14181641	+	Silent	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:14181641A>G	uc003wwq.2	-	3	967	c.307T>C	c.(307-309)TTG>CTG	p.L103L	SGCZ_uc010lss.2_Intron	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta	90	Extracellular (Potential).				cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		TTCACATACAATGGAAGTAGA	0.363													6	400	---	---	---	---	PASS
EFHA2	286097	broad.mit.edu	37	8	16955980	16955980	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:16955980A>G	uc003wxd.2	+	9	944	c.902A>G	c.(901-903)GAT>GGT	p.D301G		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	301						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		CTTAAAACAGATGCTGAGGAA	0.363													7	418	---	---	---	---	PASS
BAG4	9530	broad.mit.edu	37	8	38050307	38050307	+	Silent	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38050307A>G	uc003xky.1	+	2	654	c.372A>G	c.(370-372)CAA>CAG	p.Q124Q	BAG4_uc003xkz.1_Intron	NM_004874	NP_004865	O95429	BAG4_HUMAN	BCL2-associated athanogene 4	124					anti-apoptosis|apoptosis|protein folding	cytoplasm|nucleus	receptor signaling protein activity			ovary(1)	1	Colorectal(12;0.000442)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.121)				CAGAATTGCAAGGCCAGGTAT	0.383													7	485	---	---	---	---	PASS
PXDNL	137902	broad.mit.edu	37	8	52258454	52258454	+	Missense_Mutation	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52258454G>A	uc003xqu.3	-	20	4056	c.3955C>T	c.(3955-3957)CGC>TGC	p.R1319C	PXDNL_uc003xqt.3_Intron	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1319					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TGAGCTGAGCGTTTCTTTTGA	0.403													5	634	---	---	---	---	PASS
MYBL1	4603	broad.mit.edu	37	8	67507896	67507896	+	Silent	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67507896A>G	uc003xwj.2	-	6	1016	c.609T>C	c.(607-609)TCT>TCC	p.S203S	MYBL1_uc003xwl.2_Silent_p.S203S|MYBL1_uc003xwk.2_Silent_p.S203S	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	203					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			GTTTAGATGAAGATCGTTCTG	0.348													9	791	---	---	---	---	PASS
C8orf45	157777	broad.mit.edu	37	8	67790835	67790835	+	Missense_Mutation	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67790835C>T	uc003xwz.3	+	6	679	c.508C>T	c.(508-510)CCT>TCT	p.P170S	C8orf45_uc003xwv.2_Missense_Mutation_p.P170S|C8orf45_uc011lev.1_Missense_Mutation_p.P170S|C8orf45_uc011lew.1_Missense_Mutation_p.P101S|C8orf45_uc011lex.1_5'UTR|C8orf45_uc003xwy.3_Missense_Mutation_p.P170S	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex	170					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)			AGTGCATGTGCCTGGTGCTAC	0.308													6	634	---	---	---	---	PASS
KLF10	7071	broad.mit.edu	37	8	103662497	103662497	+	Missense_Mutation	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103662497G>A	uc011lhk.1	-	4	1460	c.1306C>T	c.(1306-1308)CGG>TGG	p.R436W	KLF10_uc011lhj.1_Missense_Mutation_p.R425W	NM_005655	NP_005646	Q13118	KLF10_HUMAN	Kruppel-like factor 10 isoform a	436	C2H2-type 3.				cell proliferation|cell-cell signaling|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|skeletal system development|transforming growth factor beta receptor signaling pathway	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_epithelial(15;5.63e-07)|Lung NSC(17;8.18e-05)|all_lung(17;0.000169)		OV - Ovarian serous cystadenocarcinoma(57;0.000112)|STAD - Stomach adenocarcinoma(118;0.0826)			ATGAACCGCCGGTCACACATG	0.527													4	192	---	---	---	---	PASS
NUDCD1	84955	broad.mit.edu	37	8	110293362	110293362	+	Missense_Mutation	SNP	G	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110293362G>C	uc003ynb.3	-	6	974	c.863C>G	c.(862-864)ACA>AGA	p.T288R	NUDCD1_uc003yna.2_Missense_Mutation_p.T259R|NUDCD1_uc010mcl.2_Missense_Mutation_p.T201R|NUDCD1_uc010mcm.1_Missense_Mutation_p.T201R	NM_032869	NP_116258	Q96RS6	NUDC1_HUMAN	NudC domain containing 1 isoform 1	288	CS.									ovary(1)|breast(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;1.56e-12)			TATGGTTACTGTCAAATCATC	0.363													10	350	---	---	---	---	PASS
KIAA0020	9933	broad.mit.edu	37	9	2823805	2823805	+	Missense_Mutation	SNP	C	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2823805C>G	uc003zhp.1	-	12	1260	c.1164G>C	c.(1162-1164)AAG>AAC	p.K388N	KIAA0020_uc010mhc.1_Missense_Mutation_p.K387N|KIAA0020_uc003zhq.1_Missense_Mutation_p.K387N	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	388	Pumilio 5.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		CAACATAAGTCTTCATTGTTT	0.259													20	223	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	9	66468755	66468755	+	RNA	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66468755T>C	uc004aec.2	+	5		c.2322T>C								Homo sapiens, clone IMAGE:5213378, mRNA.																		gtgatgcctatctgacctctc	0.000													4	3	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	9	66468909	66468909	+	RNA	SNP	G	A	A	rs78672302	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66468909G>A	uc004aec.2	+	5		c.2476G>A								Homo sapiens, clone IMAGE:5213378, mRNA.																		attgtgaccagcacagattca	0.000													3	7	---	---	---	---	PASS
ZNF169	169841	broad.mit.edu	37	9	97055309	97055309	+	Missense_Mutation	SNP	C	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:97055309C>G	uc004aum.1	+	4	319	c.214C>G	c.(214-216)CCT>GCT	p.P72A	ZNF169_uc004aun.2_Missense_Mutation_p.P72A|ZNF169_uc004auo.2_Missense_Mutation_p.P72A	NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	72	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				AGGCGACGAACCTTGGAGAGA	0.502													32	116	---	---	---	---	PASS
PITRM1	10531	broad.mit.edu	37	10	3202511	3202511	+	Missense_Mutation	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3202511T>C	uc010qah.1	-	7	739	c.707A>G	c.(706-708)TAC>TGC	p.Y236C	PITRM1_uc001igr.1_Missense_Mutation_p.Y268C|PITRM1_uc001igt.1_Missense_Mutation_p.Y268C|PITRM1_uc009xhv.1_5'Flank|PITRM1_uc001igu.1_Missense_Mutation_p.Y260C|PITRM1_uc010qai.1_Missense_Mutation_p.Y239C|PITRM1_uc001igw.1_Missense_Mutation_p.Y268C			E7ES23	E7ES23_HUMAN	SubName: Full=cDNA FLJ54065, moderately similar to Mus musculus pitrilysin metallepetidase 1 (Pitrm1), mRNA;	236					proteolysis		metalloendopeptidase activity|zinc ion binding			pancreas(1)	1						AAAATTACCGTACGTGAAGAA	0.388													5	258	---	---	---	---	PASS
LOC441666	441666	broad.mit.edu	37	10	42833142	42833142	+	RNA	SNP	A	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42833142A>T	uc010qey.1	-	3		c.833T>A				NR_024380				Homo sapiens noncoding mRNA sequence.												0						CATTCTTCACATTTGTAGGTT	0.358													3	5	---	---	---	---	PASS
LOC441666	441666	broad.mit.edu	37	10	42833154	42833154	+	RNA	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42833154T>C	uc010qey.1	-	3		c.821A>G				NR_024380				Homo sapiens noncoding mRNA sequence.												0						TTGTAGGTTGTATCTCCAGTA	0.338													4	5	---	---	---	---	PASS
PRKG1	5592	broad.mit.edu	37	10	53227633	53227633	+	Intron	SNP	G	A	A	rs140578998	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:53227633G>A	uc001jjm.2	+						PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron|PRKG1_uc010qhp.1_Missense_Mutation_p.C195Y	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform						actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		TATTTTCAATGTCTTTTCCCT	0.328													29	138	---	---	---	---	PASS
TCF7L2	6934	broad.mit.edu	37	10	114901063	114901063	+	Missense_Mutation	SNP	G	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:114901063G>T	uc001lae.3	+	6	1180	c.673G>T	c.(673-675)GAC>TAC	p.D225Y	TCF7L2_uc001lac.3_Missense_Mutation_p.D202Y|TCF7L2_uc010qrk.1_Missense_Mutation_p.D202Y|TCF7L2_uc010qrl.1_Missense_Mutation_p.D202Y|TCF7L2_uc010qrm.1_Missense_Mutation_p.D225Y|TCF7L2_uc010qrn.1_Missense_Mutation_p.D168Y|TCF7L2_uc001lad.3_Missense_Mutation_p.D202Y|TCF7L2_uc001lag.3_Missense_Mutation_p.D249Y|TCF7L2_uc001laf.3_Missense_Mutation_p.D202Y|TCF7L2_uc010qro.1_Missense_Mutation_p.D202Y|TCF7L2_uc001lah.2_Missense_Mutation_p.D202Y|TCF7L2_uc010qrp.1_Missense_Mutation_p.D202Y|TCF7L2_uc010qrq.1_Missense_Mutation_p.D202Y|TCF7L2_uc010qrr.1_Missense_Mutation_p.D144Y|TCF7L2_uc010qrs.1_Missense_Mutation_p.D96Y|TCF7L2_uc010qrt.1_Missense_Mutation_p.D96Y|TCF7L2_uc010qru.1_Missense_Mutation_p.D119Y|TCF7L2_uc010qrv.1_Missense_Mutation_p.D42Y|TCF7L2_uc010qrw.1_5'UTR|TCF7L2_uc010qrx.1_Missense_Mutation_p.D82Y	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	225	Mediates interaction with MAD2L2.|Pro-rich.				anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		AGCCGACGTAGACCCCAAAAC	0.602													52	124	---	---	---	---	PASS
PDE3B	5140	broad.mit.edu	37	11	14889185	14889185	+	Missense_Mutation	SNP	G	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:14889185G>C	uc001mln.2	+	15	3373	c.3020G>C	c.(3019-3021)GGT>GCT	p.G1007A	PDE3B_uc010rcr.1_Missense_Mutation_p.G956A	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	1007	Catalytic (By similarity).				cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						GATGCTGCTGGTTTGCTACCA	0.423													16	529	---	---	---	---	PASS
MDK	4192	broad.mit.edu	37	11	46404867	46404867	+	Intron	SNP	C	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46404867C>G	uc001nco.2	+						MDK_uc009ykz.1_3'UTR|MDK_uc001ncp.2_Intron|MDK_uc009yla.2_Intron|MDK_uc009ylb.2_Intron|MDK_uc001ncq.2_Intron|MDK_uc001ncr.2_Intron|MDK_uc001ncs.2_Intron	NM_001012334	NP_001012334	P21741	MK_HUMAN	midkine						adrenal gland development|cell differentiation|nervous system development|positive regulation of cell division|response to wounding|signal transduction	extracellular region	growth factor activity|heparin binding				0				GBM - Glioblastoma multiforme(35;0.0252)|Lung(87;0.14)		ACAATGGCTGCCCCATCCCCT	0.418											OREG0020943	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	42	---	---	---	---	PASS
OR7E5P	219445	broad.mit.edu	37	11	55746946	55746946	+	Missense_Mutation	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55746946T>C	uc010riu.1	-	4	1066	c.511A>G	c.(511-513)ACT>GCT	p.T171A		NR_027688				SubName: Full=HCG2036849; SubName: Full=Seven transmembrane helix receptor;												0						CCAAATATAGTACTATCTAAA	0.363													4	122	---	---	---	---	PASS
RBM14	10432	broad.mit.edu	37	11	66394002	66394002	+	Missense_Mutation	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66394002C>T	uc001oit.2	+	3	2012	c.1873C>T	c.(1873-1875)CGC>TGC	p.R625C	RBM14_uc009yrh.2_3'UTR|RBM14_uc009yri.2_3'UTR|RBM4_uc009yrj.2_Intron|RBM4_uc009yrk.2_Intron	NM_006328	NP_006319	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	625					DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						GCTTTCGTTCCGCCGCTCGCC	0.557													4	55	---	---	---	---	PASS
KRTAP5-7	440050	broad.mit.edu	37	11	71238705	71238705	+	Missense_Mutation	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71238705G>A	uc001oqq.1	+	1	393	c.359G>A	c.(358-360)TGC>TAC	p.C120Y		NM_001012503	NP_001012521	Q6L8G8	KRA57_HUMAN	keratin associated protein 5-7	120	7 X 4 AA repeats of C-C-X-P.					keratin filament					0						tgtaagccctgctgctgccag	0.055													3	16	---	---	---	---	PASS
B3GAT1	27087	broad.mit.edu	37	11	134252621	134252621	+	Missense_Mutation	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134252621C>T	uc001qhq.2	-	5	1162	c.901G>A	c.(901-903)GCA>ACA	p.A301T	B3GAT1_uc001qhr.2_Missense_Mutation_p.A301T|B3GAT1_uc010scv.1_Missense_Mutation_p.A314T	NM_018644	NP_061114	Q9P2W7	B3GA1_HUMAN	beta-1,3-glucuronyltransferase 1	301	Lumenal (Potential).				carbohydrate metabolic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.39e-23)|all_epithelial(12;7.17e-17)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|Medulloblastoma(222;0.0125)|all_neural(223;0.0137)|Esophageal squamous(93;0.0559)		Epithelial(10;2.58e-11)|all cancers(11;5.75e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.000879)|Lung(977;0.0864)		CAGTTGGCTGCCTTGGGCTCC	0.567													51	140	---	---	---	---	PASS
CACNA1C	775	broad.mit.edu	37	12	2786435	2786435	+	Intron	SNP	G	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2786435G>T	uc009zdu.1	+						CACNA1C_uc009zdv.1_Intron|CACNA1C_uc001qkb.2_Intron|CACNA1C_uc001qkc.2_Intron|CACNA1C_uc001qke.2_Intron|CACNA1C_uc001qkf.2_Intron|CACNA1C_uc001qjz.2_Intron|CACNA1C_uc001qkd.2_Intron|CACNA1C_uc001qkg.2_Intron|CACNA1C_uc009zdw.1_Intron|CACNA1C_uc001qkh.2_Intron|CACNA1C_uc001qkl.2_Intron|CACNA1C_uc001qkn.2_Intron|CACNA1C_uc001qko.2_Intron|CACNA1C_uc001qkp.2_Intron|CACNA1C_uc001qkr.2_Intron|CACNA1C_uc001qku.2_Intron|CACNA1C_uc001qkq.2_Intron|CACNA1C_uc001qks.2_Intron|CACNA1C_uc001qkt.2_Intron|CACNA1C_uc001qki.1_Intron|CACNA1C_uc001qkj.1_Intron|CACNA1C_uc001qkk.1_Intron|CACNA1C_uc001qkm.1_Intron|CACNA1C_uc010sea.1_Intron|uc001qkx.1_RNA|CACNA1C_uc001qky.1_5'Flank	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,						axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CCTGGTCATTGCCTCTGACCT	0.642													6	13	---	---	---	---	PASS
LTBR	4055	broad.mit.edu	37	12	6493822	6493822	+	Missense_Mutation	SNP	C	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6493822C>G	uc001qny.1	+	2	333	c.165C>G	c.(163-165)CAC>CAG	p.H55Q	LTBR_uc010sfc.1_Missense_Mutation_p.H36Q|LTBR_uc001qnz.1_Missense_Mutation_p.H55Q	NM_002342	NP_002333	P36941	TNR3_HUMAN	lymphotoxin beta receptor precursor	55	Extracellular (Potential).|TNFR-Cys 1.				apoptosis|cellular response to mechanical stimulus|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	protein binding|receptor activity			lung(2)	2						AGCCCCAGCACCGCATCTGCT	0.627													15	47	---	---	---	---	PASS
EPS8	2059	broad.mit.edu	37	12	15815026	15815026	+	Silent	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15815026T>C	uc009zif.2	-	9	838	c.744A>G	c.(742-744)AAA>AAG	p.K248K	EPS8_uc001rdb.2_Silent_p.K248K|EPS8_uc009zig.2_5'UTR|EPS8_uc010shv.1_5'UTR	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	248					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		ACTGCCTTGGTTTCTCAACTA	0.393													7	528	---	---	---	---	PASS
FAM186A	121006	broad.mit.edu	37	12	50744470	50744470	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50744470A>G	uc001rwl.2	-	4	6283	c.6145T>C	c.(6145-6147)TCT>CCT	p.S2049P	FAM186A_uc010smt.1_Missense_Mutation_p.S1827P	NM_001145475	NP_001138947	A6NE01	F186A_HUMAN	family with sequence similarity 186, member A	2049											0						GTAGTGAGAGAAGATGGTGAT	0.448													8	805	---	---	---	---	PASS
KRT3	3850	broad.mit.edu	37	12	53188042	53188042	+	Missense_Mutation	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53188042G>A	uc001say.2	-	2	785	c.719C>T	c.(718-720)TCC>TTC	p.S240F		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	240	Rod.|Linker 1.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						GCCTGAGATGGAACTTGTGCC	0.542													27	256	---	---	---	---	PASS
GPN3	51184	broad.mit.edu	37	12	110897606	110897606	+	Silent	SNP	G	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110897606G>T	uc001tqr.2	-	3	275	c.219C>A	c.(217-219)CCC>CCA	p.P73P	GPN3_uc001tqs.2_Silent_p.P83P	NM_016301	NP_057385	Q9UHW5	GPN3_HUMAN	GPN-loop GTPase 3 isoform 1	73						protein complex	GTP binding				0						ATCCTCCGTTGGGACCGAATC	0.453													55	295	---	---	---	---	PASS
NOS1	4842	broad.mit.edu	37	12	117723925	117723925	+	Missense_Mutation	SNP	T	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117723925T>A	uc001twm.1	-	6	1960	c.1274A>T	c.(1273-1275)CAG>CTG	p.Q425L		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	425					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CTTGGACCACTGGATCCTGCC	0.542													98	162	---	---	---	---	PASS
CCNA1	8900	broad.mit.edu	37	13	37014167	37014167	+	Silent	SNP	C	T	T	rs150999500	byFrequency	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:37014167C>T	uc001uvr.3	+	6	1295	c.945C>T	c.(943-945)ACC>ACT	p.T315T	CCNA1_uc010teo.1_Silent_p.T271T|CCNA1_uc010abq.2_Silent_p.T271T|CCNA1_uc010abp.2_Silent_p.T271T|CCNA1_uc001uvs.3_Silent_p.T314T|CCNA1_uc010abr.2_RNA	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	315					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		TCTATATCACCGATGATACAT	0.383													4	252	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	14	22392835	22392835	+	Intron	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22392835A>G	uc001wbw.2	+						uc010tmg.1_Intron|uc010tmh.1_Intron|uc010aiv.1_Intron|uc010tmi.1_Intron|uc010tmj.1_Intron|uc010aja.1_Intron					SubName: Full=Alpha-chain C region; Flags: Fragment;																		GGGCACAGTGACAGAACTGTC	0.522													4	46	---	---	---	---	PASS
SAV1	60485	broad.mit.edu	37	14	51111628	51111628	+	Missense_Mutation	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51111628T>C	uc001wyg.1	-	4	801	c.640A>G	c.(640-642)AGA>GGA	p.R214G	SAV1_uc001wyh.1_Missense_Mutation_p.R214G	NM_021818	NP_068590	Q9H4B6	SAV1_HUMAN	WW45 protein	214	WW 1.				hippo signaling cascade	cytoplasm|nucleus	identical protein binding			breast(1)	1	all_epithelial(31;0.000611)|Breast(41;0.0333)					TAATATTTTCTCCCTCTCATT	0.453													5	182	---	---	---	---	PASS
KTN1	3895	broad.mit.edu	37	14	56104048	56104048	+	Missense_Mutation	SNP	T	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:56104048T>A	uc001xcb.2	+	12	1984	c.1682T>A	c.(1681-1683)GTG>GAG	p.V561E	KTN1_uc001xce.2_Missense_Mutation_p.V561E|KTN1_uc001xcc.2_Missense_Mutation_p.V561E|KTN1_uc001xcd.2_Missense_Mutation_p.V561E|KTN1_uc010trb.1_Missense_Mutation_p.V561E|KTN1_uc001xcf.1_Missense_Mutation_p.V561E	NM_182926	NP_891556	Q86UP2	KTN1_HUMAN	kinectin 1 isoform a	561	Lumenal (Potential).|Potential.				microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7						CAGAAAAGGGTGAACAAAGAA	0.348			T	RET	papillary thryoid								5	345	---	---	---	---	PASS
RBM25	58517	broad.mit.edu	37	14	73563788	73563788	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73563788A>G	uc001xno.2	+	7	917	c.709A>G	c.(709-711)AAG>GAG	p.K237E	RBM25_uc001xnn.3_Missense_Mutation_p.K237E|RBM25_uc010ttu.1_Missense_Mutation_p.K237E|RBM25_uc001xnp.2_Missense_Mutation_p.K32E	NM_021239	NP_067062	P49756	RBM25_HUMAN	RNA binding motif protein 25	237					apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		CAGGAAGAAGAAGAAGGAAAA	0.378													5	251	---	---	---	---	PASS
KIAA0317	9870	broad.mit.edu	37	14	75136696	75136696	+	Missense_Mutation	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75136696G>A	uc001xqb.2	-	14	2247	c.1742C>T	c.(1741-1743)ACC>ATC	p.T581I	KIAA0317_uc010tut.1_Missense_Mutation_p.T420I	NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	581	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		GAAAGAGCGGGTGAAGCGAGC	0.522													36	71	---	---	---	---	PASS
DIO2	1734	broad.mit.edu	37	14	80669184	80669184	+	Missense_Mutation	SNP	C	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:80669184C>A	uc010tvq.1	-	4	1072	c.670G>T	c.(670-672)GGG>TGG	p.G224W	DIO2_uc010tvp.1_Missense_Mutation_p.G260W|DIO2_uc001xut.2_RNA|DIO2_uc010asx.2_3'UTR|DIO2_uc010tvr.1_Missense_Mutation_p.G224W|DIO2_uc010asy.2_3'UTR	NM_000793	NP_000784	Q92813	IOD2_HUMAN	deiodinase, iodothyronine, type II isoform a	224					hormone biosynthetic process|selenocysteine incorporation|thyroid hormone generation	integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|ubiquitin protein ligase binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0281)		AAGGCTACCCCGTAAGCTATG	0.542													31	102	---	---	---	---	PASS
FLRT2	23768	broad.mit.edu	37	14	86088605	86088605	+	Silent	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:86088605C>T	uc001xvr.2	+	2	1514	c.747C>T	c.(745-747)CTC>CTT	p.L249L	FLRT2_uc010atd.2_Silent_p.L249L	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	249	Extracellular (Potential).|LRR 8.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CTCCCGATCTCCCAGGTACGC	0.502													9	43	---	---	---	---	PASS
OR4N3P	390539	broad.mit.edu	37	15	22413810	22413810	+	Missense_Mutation	SNP	G	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22413810G>C	uc001yuf.2	+	1	109	c.109G>C	c.(109-111)GTG>CTG	p.V37L		NM_001080841	NP_001074310			RecName: Full=Olfactory receptor 4N2; AltName: Full=Olfactory receptor OR14-8; AltName: Full=Olfactory receptor OR14-13;												0						ACTCCTTGTTGTGATGGCCTT	0.498													6	147	---	---	---	---	PASS
FBN1	2200	broad.mit.edu	37	15	48766568	48766568	+	Missense_Mutation	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48766568T>C	uc001zwx.1	-	34	4422	c.4094A>G	c.(4093-4095)GAC>GGC	p.D1365G		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1365	EGF-like 23; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GGAACATTCGTCCAGATCTTA	0.348													5	177	---	---	---	---	PASS
MYO5A	4644	broad.mit.edu	37	15	52638620	52638620	+	Silent	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52638620T>C	uc002aby.2	-	30	4141	c.3897A>G	c.(3895-3897)GTA>GTG	p.V1299V	MYO5A_uc002abx.3_Silent_p.V1299V|MYO5A_uc010ugd.1_Silent_p.V48V|MYO5A_uc002aca.1_Silent_p.V51V|MYO5A_uc002acb.1_Silent_p.V51V|MYO5A_uc002acc.1_Silent_p.V48V	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	1299					actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TCATTTTTTGTACATCTTCCA	0.299													6	718	---	---	---	---	PASS
NARG2	79664	broad.mit.edu	37	15	60715740	60715740	+	3'UTR	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60715740T>C	uc002agp.2	-	16					NARG2_uc002ago.2_3'UTR	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a							nucleus				ovary(1)|lung(1)	2						GGAAAAATGTTCCTCTTGCCT	0.328													4	59	---	---	---	---	PASS
SENP8	123228	broad.mit.edu	37	15	72432091	72432091	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72432091C>T	uc002atp.2	+	2	226	c.127C>T	c.(127-129)CAG>TAG	p.Q43*		NM_145204	NP_660205	Q96LD8	SENP8_HUMAN	SUMO/sentrin specific peptidase family member 8	43	Protease.				proteolysis		cysteine-type peptidase activity|protein binding			ovary(1)|skin(1)	2						TGCCAACAGTCAGTTTCATGA	0.478													23	61	---	---	---	---	PASS
TBC1D24	57465	broad.mit.edu	37	16	2546380	2546380	+	Silent	SNP	C	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2546380C>A	uc002cql.2	+	2	371	c.231C>A	c.(229-231)ATC>ATA	p.I77I	TBC1D24_uc002cqk.2_Silent_p.I77I|TBC1D24_uc002cqm.2_Silent_p.I77I|TBC1D24_uc010bsm.2_5'Flank	NM_020705	NP_065756	Q9ULP9	TBC24_HUMAN	TBC1 domain family, member 24	77	Rab-GAP TBC.				neuron projection development	cytoplasm	protein binding|Rab GTPase activator activity				0						ACAGCGACATCGTGGGCAAGA	0.667													3	17	---	---	---	---	PASS
GPR97	222487	broad.mit.edu	37	16	57713136	57713136	+	Silent	SNP	C	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57713136C>A	uc002emh.2	+	5	643	c.540C>A	c.(538-540)CGC>CGA	p.R180R	GPR97_uc010vhv.1_Silent_p.R60R|GPR97_uc010cdd.2_RNA|GPR97_uc010cde.2_5'Flank	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	180	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						TGAACAATCGCCTGGTGGGTT	0.642													22	88	---	---	---	---	PASS
NFATC3	4775	broad.mit.edu	37	16	68156583	68156583	+	Missense_Mutation	SNP	G	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68156583G>C	uc002evo.1	+	2	1007	c.797G>C	c.(796-798)AGG>ACG	p.R266T	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Missense_Mutation_p.R266T|NFATC3_uc002evm.1_Missense_Mutation_p.R266T|NFATC3_uc002evn.1_Missense_Mutation_p.R266T|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	266	3 X SP repeats.				inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		CCCTCATCAAGGCCCACATCC	0.557													20	94	---	---	---	---	PASS
COG4	25839	broad.mit.edu	37	16	70542624	70542624	+	Intron	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70542624T>C	uc002ezc.2	-						COG4_uc002ezb.2_5'UTR|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Intron|COG4_uc002eze.2_5'UTR	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4						Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)				CTACTGTTTATAGTCTCCTAG	0.358													4	10	---	---	---	---	PASS
PTPRM	5797	broad.mit.edu	37	18	7906561	7906561	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7906561A>G	uc002knn.3	+	4	1030	c.527A>G	c.(526-528)AAG>AGG	p.K176R	PTPRM_uc010dkv.2_Missense_Mutation_p.K176R	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	176	MAM.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				GATGAGGTGAAGGTGTTAGGA	0.343													7	588	---	---	---	---	PASS
IMPA2	3613	broad.mit.edu	37	18	11999101	11999101	+	Missense_Mutation	SNP	T	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11999101T>G	uc002kqp.1	+	2	359	c.145T>G	c.(145-147)TCA>GCA	p.S49A	IMPA2_uc002kqo.1_5'UTR|IMPA2_uc010dlb.1_5'UTR|IMPA2_uc002kqq.1_5'UTR	NM_014214	NP_055029	O14732	IMPA2_HUMAN	inositol(myo)-1(or 4)-monophosphatase 2	49					inositol phosphate dephosphorylation|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(2)	2					Lithium(DB01356)	AACAAAAACATCAGCTGCAGA	0.418													77	276	---	---	---	---	PASS
SLC14A2	8170	broad.mit.edu	37	18	43246988	43246988	+	Missense_Mutation	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43246988G>A	uc010dnj.2	+	14	1967	c.1646G>A	c.(1645-1647)AGT>AAT	p.S549N	SLC14A2_uc002lbe.2_Missense_Mutation_p.S549N	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	549						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						ATGGCTGCCAGTGGGAAAAGG	0.483													4	222	---	---	---	---	PASS
MLLT1	4298	broad.mit.edu	37	19	6218035	6218035	+	Silent	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6218035C>T	uc002mek.2	-	7	1292	c.1128G>A	c.(1126-1128)CCG>CCA	p.P376P		NM_005934	NP_005925	Q03111	ENL_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	376	Poly-Ser.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|protein binding			skin(1)	1						TGGAGTTGGACGGGCTTGACT	0.532			T	MLL	AL						OREG0025196	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	176	218	---	---	---	---	PASS
ZNF98	148198	broad.mit.edu	37	19	22574443	22574443	+	Missense_Mutation	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22574443T>C	uc002nqt.2	-	4	1716	c.1594A>G	c.(1594-1596)ATT>GTT	p.I532V		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	532	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				CTGTTAAGAATAGAGGAGTTG	0.363													42	151	---	---	---	---	PASS
SULT2A1	6822	broad.mit.edu	37	19	48374639	48374639	+	3'UTR	SNP	C	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48374639C>T	uc002phr.2	-	6						NM_003167	NP_003158	Q06520	ST2A1_HUMAN	bile-salt sulfotransferase 2A1						3'-phosphoadenosine 5'-phosphosulfate metabolic process|bile acid catabolic process|cellular lipid metabolic process|digestion|sulfation|xenobiotic metabolic process	cytosol	bile-salt sulfotransferase activity			ovary(1)|pancreas(1)	2		all_cancers(25;3.02e-09)|all_lung(116;6.48e-07)|all_epithelial(76;7.35e-07)|Lung NSC(112;1.56e-06)|all_neural(266;0.0146)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000254)|all cancers(93;0.000545)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.0552)		ACACAATGACCCCAGTCAGGT	0.388													6	152	---	---	---	---	PASS
ZNF765	91661	broad.mit.edu	37	19	53911474	53911474	+	Silent	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53911474A>G	uc010ydx.1	+	6	993	c.666A>G	c.(664-666)AAA>AAG	p.K222K	ZNF765_uc002qbm.2_Silent_p.K222K|ZNF765_uc002qbn.2_Intron	NM_001040185	NP_001035275	Q7L2R6	ZN765_HUMAN	zinc finger protein 765	222	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00379)		ACAGTGGCAAAGCCTATAATT	0.343													104	140	---	---	---	---	PASS
COL20A1	57642	broad.mit.edu	37	20	61947994	61947994	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61947994A>G	uc011aau.1	+	21	2714	c.2614A>G	c.(2614-2616)ACC>GCC	p.T872A	COL20A1_uc011aav.1_Missense_Mutation_p.T693A	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	872	TSP N-terminal.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CTTCGGTGGGACCCCGACCTT	0.647													4	49	---	---	---	---	PASS
PRAME	23532	broad.mit.edu	37	22	22899415	22899415	+	Intron	SNP	A	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22899415A>T	uc002zwf.2	-						LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_5'Flank|PRAME_uc010gtr.2_Intron|PRAME_uc002zwg.2_Intron|PRAME_uc002zwh.2_Intron|PRAME_uc002zwi.2_Intron|PRAME_uc002zwj.2_Intron|PRAME_uc002zwk.2_Translation_Start_Site|LOC648691_uc011ais.1_5'Flank	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma						apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		AACCTCCGCAAATACTGCTGA	0.468													6	10	---	---	---	---	PASS
PRAME	23532	broad.mit.edu	37	22	22899416	22899416	+	Intron	SNP	A	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22899416A>T	uc002zwf.2	-						LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_5'Flank|PRAME_uc010gtr.2_Intron|PRAME_uc002zwg.2_Intron|PRAME_uc002zwh.2_Intron|PRAME_uc002zwi.2_Intron|PRAME_uc002zwj.2_Intron|PRAME_uc002zwk.2_5'UTR|LOC648691_uc011ais.1_5'Flank	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma						apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		ACCTCCGCAAATACTGCTGAG	0.473													6	10	---	---	---	---	PASS
UPB1	51733	broad.mit.edu	37	22	24921682	24921682	+	Missense_Mutation	SNP	A	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24921682A>G	uc003aaf.2	+	10	1196	c.1075A>G	c.(1075-1077)ACG>GCG	p.T359A	UPB1_uc003aae.2_Missense_Mutation_p.T291A|UPB1_uc011ajt.1_Missense_Mutation_p.T359A	NM_016327	NP_057411	Q9UBR1	BUP1_HUMAN	beta-ureidopropionase	359	CN hydrolase.				pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	beta-ureidopropionase activity|metal ion binding			ovary(2)	2	Colorectal(2;0.0339)					CTTTCAGATGACGGGCAGGTA	0.527											OREG0026412	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	123	---	---	---	---	PASS
NHS	4810	broad.mit.edu	37	X	17653571	17653571	+	Intron	SNP	T	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:17653571T>C	uc004cxx.2	+						NHS_uc011mix.1_Intron|NHS_uc004cxy.2_5'UTR|NHS_uc004cxz.2_5'UTR	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1							nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					TCGCCCTCCATCCCCCCCGCC	0.547													9	12	---	---	---	---	PASS
PDHA1	5160	broad.mit.edu	37	X	19377039	19377039	+	Missense_Mutation	SNP	G	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:19377039G>T	uc004czg.3	+	10	1050	c.905G>T	c.(904-906)CGT>CTT	p.R302L	PDHA1_uc004czh.3_Missense_Mutation_p.R337L|PDHA1_uc011mjc.1_Missense_Mutation_p.R306L|PDHA1_uc011mjd.1_Missense_Mutation_p.R268L|PDHA1_uc010nfk.2_Intron|PDHA1_uc010nfl.2_Missense_Mutation_p.R93L	NM_000284	NP_000275	P08559	ODPA_HUMAN	pyruvate dehydrogenase E1 alpha 1 precursor	302			R -> C (in PDHE1 deficiency; loss of activity; common mutation).|R -> H (in PDHE1 deficiency).		glycolysis|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	protein binding|pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)	1	Hepatocellular(33;0.183)				NADH(DB00157)	CATAGTTACCGTACACGAGAA	0.448													6	237	---	---	---	---	PASS
ZCCHC18	644353	broad.mit.edu	37	X	103358772	103358772	+	5'UTR	SNP	G	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:103358772G>T	uc011msh.1	+	3					MCART6_uc004elu.2_Intron|ZCCHC18_uc011msg.1_Intron	NM_001143978	NP_001137450	P0CG32	ZCC18_HUMAN	zinc finger, CCHC domain containing 18								nucleic acid binding|zinc ion binding				0						CGAGCATCTTGTTGTATTCAG	0.498													9	23	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	13204	13204	+	RNA	SNP	G	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrM:13204G>A	uc004cox.3	+	1		c.868G>A			uc004coy.2_5'Flank|uc004coz.1_5'Flank					Homo sapiens NADH dehydrogenase subunit 5 (MTND5) mRNA, RNA 5, complete cds; mitochondrial gene for mitochondrial product.																		TGTTCGCAGCAGTCTGCGCCC	0.448													84	21	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	1	4407219	4407219	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:4407219delC								LOC100133612 (573342 upstream) : LOC284661 (64892 downstream)																							gttctttcAACCCCAAATCCC	0.189													4	2	---	---	---	---	
NPHP4	261734	broad.mit.edu	37	1	5950752	5950752	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:5950752delT	uc001alq.1	-						NPHP4_uc001als.1_Intron|NPHP4_uc009vlt.1_Intron|NPHP4_uc001alt.1_Intron|NPHP4_uc009vlu.1_Intron	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin						actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		GTGAAAAATCTTTTCCTTTCA	0.408													4	2	---	---	---	---	
VPS13D	55187	broad.mit.edu	37	1	12544888	12544888	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12544888delT	uc001atv.2	+						VPS13D_uc001atw.2_Intron|VPS13D_uc001atx.2_Intron|VPS13D_uc009vnl.2_Intron|VPS13D_uc010obd.1_Intron	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1						protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AATCCGAATCTTTTTTTTTTT	0.403													4	2	---	---	---	---	
EPHA2	1969	broad.mit.edu	37	1	16454316	16454317	+	Intron	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16454316_16454317delCA	uc001aya.1	-							NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor						activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	CACTGCAGCGCACACACACACA	0.604													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	16944723	16944724	+	IGR	INS	-	A	A	rs113639333		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16944723_16944724insA								NBPF1 (4741 upstream) : CROCCL1 (29 downstream)																							CCCACACAGGCAAGGACAGCAG	0.500													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	17053834	17053835	+	IGR	INS	-	C	C	rs149965484		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17053834_17053835insC								ESPNP (7182 upstream) : CROCC (12933 downstream)																							acccgggttcaattcccggcca	0.262													5	3	---	---	---	---	
PADI6	353238	broad.mit.edu	37	1	17718392	17718393	+	Intron	INS	-	CTT	CTT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17718392_17718393insCTT	uc001bak.1	+							NM_207421	NP_997304	Q6TGC4	PADI6_HUMAN	peptidylarginine deiminase type 6						peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;7.59e-06)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.0134)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	TCCCAACCTGGCTCTGCCATGG	0.564													4	3	---	---	---	---	
IGSF21	84966	broad.mit.edu	37	1	18631224	18631225	+	Intron	INS	-	AC	AC	rs137989306	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18631224_18631225insAC	uc001bau.1	+							NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor							extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		cacacacacatacacacacaca	0.267													4	3	---	---	---	---	
EPHB2	2048	broad.mit.edu	37	1	23237915	23237916	+	Intron	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:23237915_23237916delCA	uc009vqj.1	+						EPHB2_uc001bge.2_Intron|EPHB2_uc001bgf.2_Intron|EPHB2_uc010odu.1_Intron	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor						axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		taggcacctgcacacacacacc	0.248									Hereditary_Prostate_Cancer				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	24817129	24817129	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:24817129delG								NIPAL3 (17657 upstream) : RCAN3 (12258 downstream)																							ggatgtgggtggggccaaata	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	25201599	25201600	+	IGR	INS	-	CGATGTGA	CGATGTGA	rs150802387	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25201599_25201600insCGATGTGA								CLIC4 (30784 upstream) : RUNX3 (24403 downstream)																							aatcccattgtcgatgtgacgg	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	31107402	31107403	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:31107402_31107403delTG								None (None upstream) : MATN1 (76723 downstream)																							tgtgcctctatgtgtgtgtgtg	0.035													4	2	---	---	---	---	
EIF2C1	26523	broad.mit.edu	37	1	36346148	36346148	+	5'Flank	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36346148delA	uc001bzl.2	+						EIF2C1_uc001bzk.2_Intron	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1						negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				gtaacagagtaagaccctgtc	0.100													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	37658736	37658736	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:37658736delT								GRIK3 (158892 upstream) : ZC3H12A (281383 downstream)																							aatccacctattgctggatcc	0.104													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	42528072	42528072	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:42528072delA								HIVEP3 (26476 upstream) : GUCA2B (91020 downstream)																							atggagacacaaaaaaaaccc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	45256877	45256878	+	IGR	DEL	AG	-	-	rs35806425		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45256877_45256878delAG								BEST4 (3451 upstream) : PLK3 (9158 downstream)																							AACAGGACTCagagagagagag	0.376													4	2	---	---	---	---	
EIF2B3	8891	broad.mit.edu	37	1	45359315	45359316	+	Intron	INS	-	CT	CT	rs141999296	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45359315_45359316insCT	uc001cmt.1	-						EIF2B3_uc001cmu.1_Intron|EIF2B3_uc001cmv.1_Intron|EIF2B3_uc001cmw.2_Intron	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,						negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					cacagtaggtggttaaATTTTC	0.203													4	2	---	---	---	---	
NSUN4	387338	broad.mit.edu	37	1	46809445	46809446	+	Intron	DEL	AG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46809445_46809446delAG	uc001cpr.1	+						NSUN4_uc010omc.1_Intron|NSUN4_uc009vyf.1_Intron|NSUN4_uc009vyg.1_Intron|NSUN4_uc001cpt.1_RNA|NSUN4_uc001cps.1_RNA	NM_199044	NP_950245	Q96CB9	NSUN4_HUMAN	NOL1/NOP2/Sun domain family 4 protein								methyltransferase activity				0	Acute lymphoblastic leukemia(166;0.155)					CCAAATTAGCAGAGGTCAGGGC	0.530													8	5	---	---	---	---	
AGBL4	84871	broad.mit.edu	37	1	49225101	49225101	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:49225101delG	uc001cru.2	-						AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crx.3_Intron|BEND5_uc001crw.3_Intron	NM_032785	NP_116174	Q5VU57	CBPC6_HUMAN	ATP/GTP binding protein-like 4						C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2				Colorectal(2;0.00349)|COAD - Colon adenocarcinoma(2;0.0037)		cttagtcaaagcccttcattt	0.080													4	2	---	---	---	---	
ZCCHC11	23318	broad.mit.edu	37	1	52956166	52956166	+	Intron	DEL	A	-	-	rs113552548		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52956166delA	uc001ctx.2	-						ZCCHC11_uc001cty.2_Intron|ZCCHC11_uc001ctz.2_Intron|ZCCHC11_uc009vze.1_Intron|ZCCHC11_uc009vzf.1_Intron|ZCCHC11_uc001cub.2_Intron|ZCCHC11_uc001cuc.2_Intron	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform						miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						gaatgaCTTGAAAAAAAAAAA	0.139													3	3	---	---	---	---	
LRP8	7804	broad.mit.edu	37	1	53758929	53758930	+	Intron	INS	-	T	T	rs139598660	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53758929_53758930insT	uc001cvi.1	-						LRP8_uc001cvh.1_Intron|LRP8_uc001cvk.1_Intron|LRP8_uc001cvj.1_Intron|LRP8_uc001cvl.1_Intron	NM_004631	NP_004622	Q14114	LRP8_HUMAN	low density lipoprotein receptor-related protein						cytokine-mediated signaling pathway|endocytosis|lipid metabolic process|platelet activation|proteolysis	caveola	calcium ion binding|very-low-density lipoprotein particle receptor activity				0						AACACCACTGCTGTCCCAAAGG	0.579													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	56821898	56821899	+	IGR	INS	-	T	T	rs150652611	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:56821898_56821899insT								None (None upstream) : PPAP2B (138534 downstream)																							GATAgaataaatagaggaacaa	0.203													0	6	---	---	---	---	
DAB1	1600	broad.mit.edu	37	1	58332657	58332657	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:58332657delT	uc001cys.1	-						DAB1_uc001cyt.1_Intron	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1						cell differentiation|nervous system development					skin(2)|ovary(1)	3						TCTCTCAGCCTTTGCCTTTCT	0.483													4	2	---	---	---	---	
DAB1	1600	broad.mit.edu	37	1	58589078	58589078	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:58589078delA	uc001cys.1	-						DAB1_uc001cyt.1_Intron	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1						cell differentiation|nervous system development					skin(2)|ovary(1)	3						ATAGAATGATAAACTATATAG	0.418													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	59694920	59694920	+	IGR	DEL	T	-	-	rs77786405		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:59694920delT								LOC729467 (82441 upstream) : FGGY (67705 downstream)																							attgcagggattttttttttc	0.000													1	5	---	---	---	---	
C1orf87	127795	broad.mit.edu	37	1	60540558	60540560	+	5'Flank	DEL	GCA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60540558_60540560delGCA	uc001czs.1	-							NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795								calcium ion binding			ovary(1)|breast(1)	2						ATCAACATAGGCAGCAGCAGCTC	0.448													4	2	---	---	---	---	
JAK1	3716	broad.mit.edu	37	1	65399991	65399991	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65399991delT	uc001dbu.1	-						JAK1_uc009wam.1_Intron	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1						interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		ATGAAGCTGCTTTTTATTTTT	0.473			Mis		ALL								4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	68097722	68097722	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68097722delA								SERBP1 (201599 upstream) : GADD45A (53161 downstream)																							TTAATAACCTAAAGTTTCTCT	0.527													4	2	---	---	---	---	
WLS	79971	broad.mit.edu	37	1	68570195	68570197	+	Intron	DEL	CCT	-	-	rs71792538		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68570195_68570197delCCT	uc001dee.2	-						uc001deb.1_Intron|uc001dec.1_Intron	NM_001002292	NP_001002292	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 2						multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0						TCATATGATCCCTCCTAAGCCCA	0.330													3	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	69870852	69870852	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:69870852delA								DEPDC1 (908053 upstream) : LRRC7 (162016 downstream)																							TGTTTTCAGGAAAAAAAAACA	0.358													4	4	---	---	---	---	
PIGK	10026	broad.mit.edu	37	1	77633705	77633706	+	Intron	INS	-	A	A	rs71849640		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:77633705_77633706insA	uc001dhk.2	-						PIGK_uc010orj.1_Intron|PIGK_uc009wbx.2_Intron|PIGK_uc001dhl.1_Intron	NM_005482	NP_005473	Q92643	GPI8_HUMAN	phosphatidylinositol glycan anchor biosynthesis,						attachment of GPI anchor to protein|C-terminal protein lipidation|protein thiol-disulfide exchange|proteolysis	GPI-anchor transamidase complex	cysteine-type endopeptidase activity|GPI-anchor transamidase activity|protein binding			ovary(2)|pancreas(1)	3						ggttgaaaaagaaaaaaAAAAA	0.129													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	83828102	83828102	+	IGR	DEL	A	-	-	rs150112948		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:83828102delA								None (None upstream) : TTLL7 (506957 downstream)																							GTGCTATATGAAAAAAAAGAT	0.318													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	84113983	84113983	+	Intron	DEL	A	-	-	rs66798849		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84113983delA	uc001diz.3	-											Homo sapiens cDNA clone IMAGE:4815396.																		AAAATGATGCAGGGAATTCTA	0.393													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	87722845	87722846	+	IGR	DEL	AA	-	-	rs10535984		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87722845_87722846delAA								LOC339524 (87961 upstream) : LMO4 (71305 downstream)																							AAGTTAGACCAAGTGAGACCTC	0.406													0	7	---	---	---	---	
LMO4	8543	broad.mit.edu	37	1	87813144	87813144	+	3'UTR	DEL	A	-	-	rs76142413		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87813144delA	uc001dmi.2	+	5					LMO4_uc001dmj.2_3'UTR	NM_006769	NP_006760	P61968	LMO4_HUMAN	LIM domain only 4						neural tube closure|transcription from RNA polymerase II promoter	transcription factor complex	sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding				0		Lung NSC(277;0.179)		all cancers(265;0.00456)|Epithelial(280;0.0148)|BRCA - Breast invasive adenocarcinoma(282;0.153)		ATTGCTTAGGAAAAAAAAAAA	0.363													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	88541781	88541781	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:88541781delT								LMO4 (727178 upstream) : PKN2 (608141 downstream)																							tcaccaaacattttttttgag	0.224													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	89058456	89058456	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89058456delA								None (None upstream) : PKN2 (91466 downstream)																							catctcaaagaaaaaaaaaaa	0.000													4	2	---	---	---	---	
LRRC8D	55144	broad.mit.edu	37	1	90357161	90357161	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:90357161delC	uc001dnm.2	+						LRRC8D_uc001dnn.2_Intron	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member							integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		ttttgtctttccatcatttcc	0.060													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	91685756	91685756	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91685756delC								ZNF644 (198085 upstream) : HFM1 (40568 downstream)																							tgtgttcacaccccctgaggt	0.000													4	2	---	---	---	---	
RPAP2	79871	broad.mit.edu	37	1	92811726	92811727	+	Intron	INS	-	T	T	rs113789930		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92811726_92811727insT	uc001dot.2	+						RPAP2_uc009wdh.2_Intron	NM_024813	NP_079089	Q8IXW5	RPAP2_HUMAN	RNA polymerase II associated protein 2							integral to membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		all_lung(203;0.0565)|Lung NSC(277;0.152)|Glioma(108;0.222)		all cancers(265;0.00647)|GBM - Glioblastoma multiforme(16;0.0234)|Epithelial(280;0.115)		TCTCttttttgttttttttttt	0.099													7	4	---	---	---	---	
DPYD	1806	broad.mit.edu	37	1	97668748	97668750	+	Intron	DEL	GGT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:97668748_97668750delGGT	uc001drv.2	-							NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1						'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	CAGTAACACAGGTGGTGGTGTAA	0.429													4	2	---	---	---	---	
SNX7	51375	broad.mit.edu	37	1	99166024	99166024	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:99166024delA	uc010ouc.1	+						SNX7_uc001dsa.2_Intron|SNX7_uc010oud.1_Intron	NM_015976	NP_057060	Q9UNH6	SNX7_HUMAN	sorting nexin 7 isoform a						cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		all_epithelial(167;7.64e-07)|all_lung(203;0.0006)|Lung NSC(277;0.00137)		Epithelial(280;0.0521)|all cancers(265;0.0687)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.207)|Colorectal(170;0.234)		acattgaggtaaatataaagg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	100045221	100045221	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100045221delT								LPPR4 (270085 upstream) : PALMD (66210 downstream)																							GGCTCTTTCCTTTTTTTTAAT	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	101312004	101312005	+	IGR	INS	-	T	T	rs147389437	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101312004_101312005insT								VCAM1 (107405 upstream) : EXTL2 (25936 downstream)																							TCAGCAATGTATTTTTTTGGTT	0.124													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	103637263	103637264	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:103637263_103637264insT								COL11A1 (63211 upstream) : RNPC3 (431314 downstream)																							TCTTTGGTGAATTTTTTTTTAA	0.267													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	104058412	104058413	+	IGR	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:104058412_104058413delCA								COL11A1 (484360 upstream) : RNPC3 (10165 downstream)																							aatgcacgtgcacacacacaca	0.000													4	2	---	---	---	---	
AMY1A	276	broad.mit.edu	37	1	104298563	104298563	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:104298563delA	uc001duy.2	+						AMY1A_uc001duz.2_Intron	NM_001008221	NP_001008222	P04745	AMY1_HUMAN	salivary amylase alpha 1A precursor						carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding|protein binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0654)|all cancers(265;0.0808)|Epithelial(280;0.0921)|Lung(183;0.111)		gtcAATTTATAAAAAAAAATG	0.085													8	4	---	---	---	---	
VAV3	10451	broad.mit.edu	37	1	108192184	108192184	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:108192184delT	uc001dvk.1	-						VAV3_uc010ouu.1_Intron|VAV3_uc001dvj.1_Intron|VAV3_uc010ouv.1_Intron|VAV3_uc010ouw.1_Intron	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform						angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		TCCCCTTGGCTTTTTTTTTGT	0.428													4	2	---	---	---	---	
VAV3	10451	broad.mit.edu	37	1	108383282	108383282	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:108383282delA	uc001dvk.1	-						VAV3_uc010ouw.1_Intron|VAV3_uc001dvl.1_Intron|VAV3_uc010oux.1_Intron	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform						angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		AGGAAGCAACAAAAGTTAAGT	0.383													4	2	---	---	---	---	
STXBP3	6814	broad.mit.edu	37	1	109317450	109317450	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:109317450delT	uc001dvy.2	+						STXBP3_uc001dvz.2_Intron	NM_007269	NP_009200	O00186	STXB3_HUMAN	syntaxin binding protein 3						negative regulation of calcium ion-dependent exocytosis|neutrophil degranulation|platelet aggregation|protein transport|vesicle docking involved in exocytosis	cytosol|nucleus|platelet alpha granule|specific granule|tertiary granule	syntaxin-2 binding			ovary(3)|central_nervous_system(1)	4		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0386)|Lung(183;0.104)|COAD - Colon adenocarcinoma(174;0.137)|Epithelial(280;0.231)		CTGTTAAGGGTTTAGTAACTG	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	111115406	111115406	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111115406delT								KCNA10 (53609 upstream) : KCNA2 (20797 downstream)																							tcctacattattttatgaaat	0.249													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	111206085	111206085	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111206085delT								KCNA2 (31989 upstream) : KCNA3 (8225 downstream)																							ATTGTGCCACTTCGATATGCA	0.403													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	115933792	115933796	+	IGR	DEL	ATGTT	-	-	rs149428127		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:115933792_115933796delATGTT								NGF (52935 upstream) : VANGL1 (250778 downstream)																							ggaatgattaatgttatgttattac	0.020													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	142649812	142649812	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142649812delG	uc001eiw.1	+						uc001eix.1_Intron					Homo sapiens PNAS-130 mRNA, complete cds.																		ttcttgagcagtaggtgtcaa	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	143495344	143495345	+	IGR	INS	-	A	A	rs79386094		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:143495344_143495345insA								None (None upstream) : LOC100286793 (152294 downstream)																							attaaagagacaaaaaaactgt	0.089													4	2	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	145077808	145077809	+	Intron	INS	-	C	C	rs771108		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145077808_145077809insC	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elo.2_5'Flank|PDE4DIP_uc001emh.2_5'Flank|PDE4DIP_uc001emk.2_5'Flank			Q3BBV1	NBPFK_HUMAN	RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0						AAAAAAAAAAAAAAAAACCTGT	0.391													4	2	---	---	---	---	
NBPF10	100132406	broad.mit.edu	37	1	145231553	145231554	+	Intron	INS	-	C	C	rs142041832		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145231553_145231554insC	uc001emp.3	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NOTCH2NL_uc001emn.3_Intron|NOTCH2NL_uc001emm.3_Intron|NOTCH2NL_uc001emo.2_Intron|NOTCH2NL_uc010oyh.1_Intron	NM_017940	NP_060410	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		ATGCTATGGAACCTTCAGGGAT	0.386													3	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	146476728	146476729	+	IGR	DEL	AT	-	-	rs67696815		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146476728_146476729delAT								NBPF10 (52633 upstream) : LOC728989 (14166 downstream)																							TTATGGAGCAATAGAGAGGAAC	0.342													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	148878223	148878224	+	Intron	INS	-	G	G	rs148644240		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:148878223_148878224insG	uc009wkv.1	+											Homo sapiens cDNA, FLJ17483.																		ctcctgcctcagccttctgagt	0.000													4	2	---	---	---	---	
LOC388692	388692	broad.mit.edu	37	1	149281361	149281362	+	RNA	INS	-	T	T	rs147139304	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149281361_149281362insT	uc010pbf.1	+	1		c.1886_1887insT				NR_027002				Homo sapiens cDNA FLJ13580 fis, clone PLACE1008851.												0						GGGCAATTGCCTTTTTTTTTCT	0.510													5	3	---	---	---	---	
OTUD7B	56957	broad.mit.edu	37	1	149956177	149956178	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149956177_149956178insA	uc001etn.2	-							NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne						negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			ctacttcacagaaaaaaAAAAT	0.218													4	2	---	---	---	---	
SDHC	6391	broad.mit.edu	37	1	161304120	161304120	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161304120delT	uc001gag.2	+						SDHC_uc001gai.2_Intron|SDHC_uc001gaj.2_Intron|SDHC_uc001gak.2_Intron|SDHC_uc001gah.2_Intron	NM_003001	NP_002992	Q99643	C560_HUMAN	succinate dehydrogenase complex, subunit C						respiratory electron transport chain|transport|tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain complex II|plasma membrane succinate dehydrogenase complex	electron carrier activity|heme binding|succinate dehydrogenase activity				0	all_cancers(52;6.96e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Succinic acid(DB00139)	tctgcttttcttttTTCTCAT	0.055			Mis|N|F			paraganglioma|pheochromocytoma			Familial_Paragangliomas|Carney-Stratakis_syndrome				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	162842354	162842354	+	IGR	DEL	A	-	-	rs35455681		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162842354delA								C1orf110 (3749 upstream) : RGS4 (196042 downstream)																							CTGTGTATATAAAAAAATCAC	0.080													3	6	---	---	---	---	
FAM78B	149297	broad.mit.edu	37	1	166055311	166055311	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:166055311delT	uc001gdr.2	-						FAM78B_uc010plc.1_Intron	NM_001017961	NP_001017961	Q5VT40	FA78B_HUMAN	hypothetical protein LOC149297											central_nervous_system(1)|skin(1)	2	all_hematologic(923;0.0813)|Acute lymphoblastic leukemia(8;0.155)					tatgttactcttttttttttt	0.045													5	3	---	---	---	---	
KLHL20	27252	broad.mit.edu	37	1	173751606	173751606	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173751606delA	uc001gjc.2	+						KLHL20_uc010pmr.1_Intron|KLHL20_uc009wwf.2_Intron	NM_014458	NP_055273	Q9Y2M5	KLH20_HUMAN	kelch-like 20						cytoskeleton organization|negative regulation of apoptosis|proteasomal ubiquitin-dependent protein catabolic process|response to interferon-alpha	actin cytoskeleton|cell surface|Cul3-RING ubiquitin ligase complex|Golgi apparatus|perinuclear region of cytoplasm|PML body	actin binding|interferon-gamma binding|ubiquitin-protein ligase activity			ovary(1)	1						taaaatagggaaaaaaaatct	0.149													3	3	---	---	---	---	
RFWD2	64326	broad.mit.edu	37	1	175924384	175924384	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:175924384delA	uc001gku.1	-						RFWD2_uc001gkv.1_Intron|RFWD2_uc001gkw.1_Intron|RFWD2_uc009wwv.2_Intron|RFWD2_uc001gkt.1_Intron	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a						DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						gcctcaaaacaaaaaaaagaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	177541856	177541856	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:177541856delT								FAM5B (290299 upstream) : SEC16B (355633 downstream)																							TTAAGCCAAATTTTTTTTTTT	0.318													3	3	---	---	---	---	
ABL2	27	broad.mit.edu	37	1	179099862	179099863	+	Intron	DEL	TG	-	-	rs35792934		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179099862_179099863delTG	uc001gmj.3	-						ABL2_uc010pnf.1_Intron|ABL2_uc010png.1_Intron|ABL2_uc010pnh.1_Intron|ABL2_uc009wxe.2_Intron|ABL2_uc001gmg.3_Intron|ABL2_uc001gmi.3_Intron|ABL2_uc001gmh.3_Intron|ABL2_uc010pne.1_Intron|ABL2_uc009wxf.1_Intron|ABL2_uc001gmk.2_Intron	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b						axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	TTATTGATTTtgtgtgtgtgtg	0.252			T	ETV6	AML								3	3	---	---	---	---	
LAMC2	3918	broad.mit.edu	37	1	183206866	183206866	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183206866delA	uc001gqa.2	+						LAMC2_uc001gpz.3_Intron|LAMC2_uc010poa.1_Intron	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor						cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						aataaaaaataaaaaaatagc	0.000													4	2	---	---	---	---	
NMNAT2	23057	broad.mit.edu	37	1	183356375	183356375	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183356375delT	uc001gqc.1	-							NM_015039	NP_055854	Q9BZQ4	NMNA2_HUMAN	nicotinamide mononucleotide adenylyltransferase						water-soluble vitamin metabolic process	Golgi membrane|nucleus	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity			skin(1)	1						GATCCCTGTGTTTTTTTTTTT	0.209													0	7	---	---	---	---	
EDEM3	80267	broad.mit.edu	37	1	184665709	184665709	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:184665709delT	uc010pok.1	-						EDEM3_uc010pol.1_Intron|EDEM3_uc010pom.1_Intron	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like						post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						ATTCTTAGGGTTTTTTTTCCG	0.323													4	2	---	---	---	---	
EDEM3	80267	broad.mit.edu	37	1	184667932	184667932	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:184667932delG	uc010pok.1	-						EDEM3_uc010pol.1_Intron|EDEM3_uc010pom.1_Intron	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like						post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						gacagagagagagagacagag	0.294													4	2	---	---	---	---	
EDEM3	80267	broad.mit.edu	37	1	184667934	184667934	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:184667934delG	uc010pok.1	-						EDEM3_uc010pol.1_Intron|EDEM3_uc010pom.1_Intron	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like						post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						cagagagagagagacagagag	0.299													4	2	---	---	---	---	
HMCN1	83872	broad.mit.edu	37	1	185893836	185893836	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:185893836delT	uc001grq.1	+							NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor						response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GGTTCTTAAGtttttgaaata	0.149													4	2	---	---	---	---	
FAM5C	339479	broad.mit.edu	37	1	190433277	190433277	+	Intron	DEL	A	-	-	rs2419379	byFrequency	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:190433277delA	uc001gse.1	-						FAM5C_uc010pot.1_Intron	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C							extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					GTTTTTTTTTAAAAAAAAAAG	0.234													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	192103052	192103052	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:192103052delA								None (None upstream) : RGS18 (24540 downstream)																							TTGTGAAGACAAAAAAAAAAT	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	198478419	198478419	+	IGR	DEL	T	-	-	rs35498165		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:198478419delT								NEK7 (186873 upstream) : ATP6V1G3 (13937 downstream)																							aggataaaagttttttttttt	0.000													4	2	---	---	---	---	
NAV1	89796	broad.mit.edu	37	1	201792492	201792493	+	3'UTR	DEL	GT	-	-	rs4025039		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201792492_201792493delGT	uc001gwu.2	+	29					NAV1_uc001gwx.2_3'UTR	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1						cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						TGAtgtctgcgtgtgtgtgtgt	0.342													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	208647656	208647656	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:208647656delT								PLXNA2 (229991 upstream) : LOC642587 (954512 downstream)																							TCCAAGACAGTTGTGGAAGAT	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	209222453	209222453	+	IGR	DEL	T	-	-	rs67437582		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209222453delT								PLXNA2 (804788 upstream) : LOC642587 (379715 downstream)																							gTCATAGTCATTATAGACACA	0.249													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	209579663	209579663	+	IGR	DEL	T	-	-	rs75805417		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209579663delT								None (None upstream) : LOC642587 (22505 downstream)																							CTCACTTTCATTTTTTTTTTT	0.378													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	211898759	211898760	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211898759_211898760insT								NEK2 (49792 upstream) : LPGAT1 (18040 downstream)																							CCCTCCTCCTCCTCTCTCTCCA	0.500													4	2	---	---	---	---	
USH2A	7399	broad.mit.edu	37	1	215826834	215826834	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215826834delT	uc001hku.1	-							NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B						maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GATCAACCTATTTACATGAGC	0.313										HNSCC(13;0.011)			4	2	---	---	---	---	
LYPLAL1	127018	broad.mit.edu	37	1	219348907	219348907	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:219348907delA	uc001hlq.3	+						uc001hlp.2_5'Flank|LYPLAL1_uc001hlr.3_Intron|LYPLAL1_uc001hls.3_Intron|LYPLAL1_uc001hlt.3_Intron|LYPLAL1_uc009xds.2_Intron	NM_138794	NP_620149	Q5VWZ2	LYPL1_HUMAN	lysophospholipase-like 1							cytoplasm	lysophospholipase activity				0				GBM - Glioblastoma multiforme(131;0.055)|all cancers(67;0.105)|OV - Ovarian serous cystadenocarcinoma(81;0.116)		ACATTTTTATAACCTGTAAGG	0.294													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	220135134	220135135	+	IGR	INS	-	A	A	rs144468421	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:220135134_220135135insA								SLC30A10 (3145 upstream) : EPRS (6807 downstream)																							ccagagaagtgtggagcagggg	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	221335481	221335481	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:221335481delA								HLX (277083 upstream) : LOC400804 (167789 downstream)																							TGTGTAaaagaaaaaaaaaag	0.204													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	221443670	221443670	+	IGR	DEL	A	-	-	rs67833665		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:221443670delA								HLX (385272 upstream) : LOC400804 (59600 downstream)																							ATCCTTCTTTAAAAAAATGAG	0.383													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	224676843	224676843	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:224676843delT	uc001hor.1	+											full-length cDNA clone CS0DC026YN07 of Neuroblastoma Cot 25-normalized of Homo sapiens (human).																		atttttcttcttttttttaat	0.000													4	2	---	---	---	---	
DNAH14	127602	broad.mit.edu	37	1	225575615	225575615	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:225575615delA	uc001how.2	+						DNAH14_uc001hox.2_Intron	NM_001373	NP_001364	Q0VDD8	DYH14_HUMAN	dynein, axonemal, heavy polypeptide 14 isoform						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1						ACAGGGCTGGAGAATGGAAAG	0.527													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	226803947	226803947	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226803947delT								C1orf95 (10644 upstream) : ITPKB (15445 downstream)																							cagtgagaggttttgagtccc	0.005													4	2	---	---	---	---	
ITPKB	3707	broad.mit.edu	37	1	226911810	226911810	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226911810delC	uc010pvo.1	-						ITPKB_uc001hqh.2_Intron	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B								ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				cttcacagcaccccctgagag	0.129													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	229049445	229049445	+	IGR	DEL	A	-	-	rs11369814		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229049445delA								RHOU (167036 upstream) : RAB4A (357434 downstream)																							CTTTAAATTGAAAAAAAAAAA	0.353													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	229556263	229556263	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229556263delC								C1orf96 (77575 upstream) : ACTA1 (10732 downstream)																							CCATATCGCACGTCTCCGTTC	0.388													4	2	---	---	---	---	
TTC13	79573	broad.mit.edu	37	1	231051651	231051652	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:231051651_231051652insT	uc001huf.3	-						TTC13_uc009xfi.2_Intron|TTC13_uc009xfj.2_Intron|TTC13_uc001hug.3_Intron|TTC13_uc009xfk.1_Intron	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a								binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		CCTCCCTCGCCCCCCCAAGGAA	0.356													4	2	---	---	---	---	
RBM34	23029	broad.mit.edu	37	1	235299761	235299761	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235299761delG	uc001hwn.2	-						RBM34_uc001hwo.2_Intron|ARID4B_uc001hwp.2_Intron	NM_015014	NP_055829	P42696	RBM34_HUMAN	RNA binding motif protein 34 isoform 1							nucleolus	nucleotide binding|RNA binding			central_nervous_system(1)	1	Ovarian(103;0.0398)	all_cancers(173;0.177)|Prostate(94;0.0166)	OV - Ovarian serous cystadenocarcinoma(106;5.43e-05)|Epithelial(3;0.000121)			aacagcccttggataatacac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	238096945	238096945	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:238096945delT								LOC100130331 (5328 upstream) : LOC339535 (546741 downstream)																							AAAGAACACATAGAATATGAA	0.398													4	2	---	---	---	---	
RGS7	6000	broad.mit.edu	37	1	241139221	241139222	+	Intron	INS	-	A	A	rs143618582	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241139221_241139222insA	uc001hyv.2	-						RGS7_uc010pyh.1_Intron|RGS7_uc010pyj.1_Intron|RGS7_uc001hyu.2_Intron|RGS7_uc009xgn.1_Intron|RGS7_uc001hyw.2_Intron	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7						G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			GTGCAttgtatagtccttcctt	0.277													2	6	---	---	---	---	
RGS7	6000	broad.mit.edu	37	1	241247814	241247814	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241247814delA	uc001hyv.2	-						RGS7_uc010pyh.1_Intron|RGS7_uc010pyj.1_Intron|RGS7_uc001hyu.2_Intron|RGS7_uc009xgn.1_Intron|RGS7_uc001hyw.2_Intron	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7						G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			AACAGTGAGGAAAAAATAGCA	0.343													4	2	---	---	---	---	
PLD5	200150	broad.mit.edu	37	1	242308898	242308898	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:242308898delT	uc001hzn.1	-						PLD5_uc001hzl.3_Intron|PLD5_uc001hzm.3_Intron|PLD5_uc001hzo.1_Intron			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;							integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			TGATAAGAACttttttttaat	0.338													4	2	---	---	---	---	
PPPDE1	51029	broad.mit.edu	37	1	244852819	244852820	+	Intron	INS	-	T	T	rs138991913	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:244852819_244852820insT	uc001iao.2	+						PPPDE1_uc001iap.2_Intron	NM_016076	NP_057160	Q9BSY9	PPDE1_HUMAN	PPPDE peptidase domain containing 1											breast(3)	3						Atttcttttccttttttttttg	0.134													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	245899087	245899087	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:245899087delA								KIF26B (32659 upstream) : SMYD3 (13558 downstream)																							aggctagattaaaaaaaaaaa	0.010													4	2	---	---	---	---	
ZNF695	57116	broad.mit.edu	37	1	247165411	247165411	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247165411delA	uc009xgu.2	-						ZNF695_uc001ica.2_Intron|ZNF695_uc001icb.1_Intron|ZNF695_uc009xgt.1_Intron|ZNF695_uc001ibx.2_Intron|ZNF695_uc001iby.2_Intron|ZNF695_uc001icc.2_Intron	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3						regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			ccaacaaattaaaaaaaaaac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	248611107	248611108	+	IGR	INS	-	G	G	rs143501034	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248611107_248611108insG								OR2T1 (40703 upstream) : OR2T2 (4991 downstream)																							TGAACCTTTGAGGTAAAGAATT	0.223													4	2	---	---	---	---	
TPO	7173	broad.mit.edu	37	2	1542853	1542853	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1542853delA	uc002qww.2	+						TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Intron|TPO_uc002qwr.2_Intron|TPO_uc002qwx.2_Intron|TPO_uc010yio.1_Intron|TPO_uc010yip.1_Intron|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a						cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	attacatctgaaaaaaacctt	0.070													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	8213214	8213214	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8213214delA	uc010eww.1	-											Homo sapiens cDNA FLJ45673 fis, clone D9OST2003989.																		CAGAATGGGGAAAAAAAAATA	0.313													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	9207816	9207816	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9207816delT								MBOAT2 (63940 upstream) : ASAP2 (139078 downstream)																							atttgtctcatttttttttta	0.000													4	2	---	---	---	---	
ROCK2	9475	broad.mit.edu	37	2	11340846	11340846	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:11340846delA	uc002rbd.1	-							NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein						axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		GTTTAAAAAGAAAAAAAAAAA	0.343													4	3	---	---	---	---	
LPIN1	23175	broad.mit.edu	37	2	11907114	11907115	+	Intron	INS	-	G	G	rs139877664	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:11907114_11907115insG	uc010yjn.1	+						LPIN1_uc010yjm.1_Intron|LPIN1_uc002rbt.2_Intron|LPIN1_uc002rbs.2_Intron|hsa-mir-548s|MI0014141_5'Flank	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1						fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		cttgtcccagagggggtccgtt	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	11996820	11996820	+	IGR	DEL	G	-	-	rs80098210		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:11996820delG								LPIN1 (29289 upstream) : TRIB2 (860178 downstream)																							ccaggagaaagggagagcttg	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	12522231	12522232	+	Intron	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:12522231_12522232delAC	uc002rbu.1	+											Homo sapiens cDNA FLJ10696 fis, clone NT2RP3000484.																		acatggagatacacacacacaT	0.198													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	12800695	12800696	+	IGR	INS	-	T	T	rs141362121	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:12800695_12800696insT								LPIN1 (833164 upstream) : TRIB2 (56302 downstream)																							TTTCAGAAAACTTTTTTTTTTA	0.322													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	19504689	19504689	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:19504689delT								NT5C1B (733851 upstream) : OSR1 (46558 downstream)																							tgtacaaagatttttttttta	0.050													3	4	---	---	---	---	
PUM2	23369	broad.mit.edu	37	2	20455540	20455540	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20455540delA	uc002rds.1	-						PUM2_uc002rdq.1_Intron|PUM2_uc002rdt.1_Intron|PUM2_uc002rdr.2_Intron|PUM2_uc010yjy.1_Intron|PUM2_uc002rdu.1_Intron|PUM2_uc010yjz.1_Intron	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2						regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGGTATAAATAAAAAACAATT	0.313													4	2	---	---	---	---	
PLB1	151056	broad.mit.edu	37	2	28781573	28781574	+	Intron	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28781573_28781574delTG	uc002rmb.1	+						PLB1_uc010ezj.1_Intron|PLB1_uc002rmc.2_Intron	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor						lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					tgtgtgtgtatgtgtgtgtgtg	0.332													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	28893060	28893061	+	IGR	INS	-	G	G	rs141997029	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28893060_28893061insG								PLB1 (26447 upstream) : PPP1CB (81551 downstream)																							ttgagagaagagagatggatgg	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	31061119	31061119	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31061119delC								CAPN13 (30808 upstream) : GALNT14 (72215 downstream)																							ACACTAGGAACCCAGATAAAA	0.274													4	2	---	---	---	---	
CAPN14	440854	broad.mit.edu	37	2	31432750	31432751	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31432750_31432751insA	uc010yms.1	-						CAPN14_uc002rnt.1_Intron	NM_001145122	NP_001138594	A8MX76	CAN14_HUMAN	calpain 14						proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity				0						ccttttaaaagaaaaaaaaaat	0.134													4	2	---	---	---	---	
RASGRP3	25780	broad.mit.edu	37	2	33739781	33739782	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33739781_33739782insA	uc002rox.2	+						RASGRP3_uc010ync.1_Intron|RASGRP3_uc002roy.2_Intron	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and						MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					caaaaacaatcaaaaaaaaGGA	0.163													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	35105342	35105342	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:35105342delA								None (None upstream) : None (None downstream)																							ACTTATAGGCAAAGGGAACTT	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	36097702	36097702	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36097702delA								None (None upstream) : CRIM1 (485695 downstream)																							AAAATATACTAAACAAACCCA	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	36357720	36357720	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36357720delG								None (None upstream) : CRIM1 (225677 downstream)																							AGTTGTTGATGGGGGAAGAAG	0.483													4	2	---	---	---	---	
CRIM1	51232	broad.mit.edu	37	2	36719146	36719147	+	Intron	INS	-	A	A	rs72123286		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36719146_36719147insA	uc002rpd.2	+							NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor						nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				CCCCACTCtataaaaaaaaatt	0.272													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	37568651	37568651	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37568651delT								PRKD3 (24429 upstream) : QPCT (3102 downstream)																							cgtcctcttcttttttttttt	0.050													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	37722436	37722436	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37722436delT								QPCT (121972 upstream) : CDC42EP3 (148307 downstream)																							catgtattgatttgtgtatgt	0.000													4	2	---	---	---	---	
C2orf58	285154	broad.mit.edu	37	2	38406094	38406094	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38406094delA	uc010faj.1	+							NR_027252				Homo sapiens chromosome 2 open reading frame 58, mRNA (cDNA clone IMAGE:5197672).												0						cctactttccaaaaaaaaaca	0.000													5	4	---	---	---	---	
THUMPD2	80745	broad.mit.edu	37	2	39990311	39990312	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39990311_39990312insT	uc002rru.2	-						THUMPD2_uc002rrv.2_Intron|THUMPD2_uc010ynt.1_Intron|THUMPD2_uc010ynu.1_Intron	NM_025264	NP_079540	Q9BTF0	THUM2_HUMAN	THUMP domain containing 2								methyltransferase activity			skin(1)	1		all_hematologic(82;0.248)				GCATGTGTGCATTTTTTTTTCT	0.233													4	2	---	---	---	---	
SLC8A1	6546	broad.mit.edu	37	2	40498320	40498321	+	Intron	INS	-	C	C	rs138396968	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:40498320_40498321insC	uc002rrx.2	-						SLC8A1_uc002rry.2_Intron|SLC8A1_uc002rrz.2_Intron|SLC8A1_uc002rsa.2_Intron|SLC8A1_uc002rsd.3_Intron|SLC8A1_uc002rsb.1_Intron	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium						cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	gcccccctcatatggctgacag	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	42346117	42346117	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:42346117delA								PKDCC (60451 upstream) : EML4 (50373 downstream)																							ctggactttgaaaaaAAAAGa	0.124													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	43077743	43077743	+	IGR	DEL	G	-	-	rs11890952	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43077743delG								HAAO (57992 upstream) : ZFP36L2 (371799 downstream)																							CTCTGAGCCCGTTGCTCATCC	0.592													4	2	---	---	---	---	
PLEKHH2	130271	broad.mit.edu	37	2	43972771	43972771	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43972771delA	uc010yny.1	+							NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H							cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CTTTTTGAGTAAAAAATGCGT	0.388													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	45297159	45297160	+	IGR	INS	-	A	A	rs76739525		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:45297159_45297160insA								SIX2 (60616 upstream) : SRBD1 (318660 downstream)																							TCACTCCACAGAAAAAAAAATA	0.406													4	2	---	---	---	---	
PRKCE	5581	broad.mit.edu	37	2	46218503	46218503	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46218503delT	uc002rut.2	+							NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon						activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			aggacagagatttttttttgt	0.040													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	46503850	46503851	+	IGR	INS	-	G	G	rs150195567	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46503850_46503851insG								PRKCE (88722 upstream) : EPAS1 (20712 downstream)																							gaggggggagtgGGGAGAGAGT	0.238													0	8	---	---	---	---	
SOCS5	9655	broad.mit.edu	37	2	46987767	46987767	+	3'UTR	DEL	A	-	-	rs10221923	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46987767delA	uc002rvf.2	+	2					SOCS5_uc002rvg.2_3'UTR	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5						cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			TTCCTTTTAGAAAAAAATGCA	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	47106739	47106742	+	IGR	DEL	GATG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:47106739_47106742delGATG								LOC100134259 (20594 upstream) : MCFD2 (22275 downstream)																							tgggtaggtagatggatggatgga	0.000													5	3	---	---	---	---	
ACYP2	98	broad.mit.edu	37	2	54389180	54389180	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54389180delT	uc002rxq.3	+							NM_138448	NP_612457	P14621	ACYP2_HUMAN	acylphosphatase 2						phosphate metabolic process		acylphosphatase activity				0						AGATTCTTACTTTTTTTTGTT	0.279													3	3	---	---	---	---	
EML6	400954	broad.mit.edu	37	2	55080589	55080589	+	Intron	DEL	A	-	-	rs5831325		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:55080589delA	uc002ryb.3	+							NM_001039753	NP_001034842	Q6ZMW3	EMAL6_HUMAN	echinoderm microtubule associated protein like							cytoplasm|microtubule					0						ttttctttttaatgTCTGAGT	0.154													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	56990401	56990401	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:56990401delT								CCDC85A (377093 upstream) : None (None downstream)																							tgtttttttgttttttttttC	0.294													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	57772175	57772175	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:57772175delA								None (None upstream) : VRK2 (362611 downstream)																							CCAAAAGAGGAAAAAAATTGT	0.378													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	60105745	60105745	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:60105745delA								None (None upstream) : BCL11A (572558 downstream)																							TCAGAGAGAGAAAAAAAAAAT	0.393													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	61902156	61902156	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61902156delA								XPO1 (136738 upstream) : FAM161A (149829 downstream)																							CCATGGGGATAAAAAATGGGA	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	62766229	62766229	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62766229delA								TMEM17 (3449 upstream) : EHBP1 (134784 downstream)																							TGAGGATTGGAGGTtgtagta	0.189													4	2	---	---	---	---	
C2orf86	51057	broad.mit.edu	37	2	63737184	63737184	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:63737184delA	uc002sch.2	-						C2orf86_uc002sci.1_Intron	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2						cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						caaacaacagaaaaaaaaagc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	64988614	64988614	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64988614delA								SERTAD2 (107568 upstream) : SLC1A4 (226965 downstream)																							TTATTACAAGAAAAAAGGAAA	0.269													4	2	---	---	---	---	
SPRED2	200734	broad.mit.edu	37	2	65615851	65615852	+	Intron	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65615851_65615852delCA	uc002sdr.3	-						SPRED2_uc010fcx.1_Intron	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2						inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						ACAGGCACACCACACACACACA	0.485													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	67211991	67211993	+	IGR	DEL	ATC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:67211991_67211993delATC								MEIS1 (412101 upstream) : ETAA1 (412449 downstream)																							tatcattgttatcatcatcatca	0.108													4	2	---	---	---	---	
PPP3R1	5534	broad.mit.edu	37	2	68434780	68434781	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68434780_68434781insA	uc002sei.1	-							NM_000945	NP_000936	P63098	CANB1_HUMAN	protein phosphatase 3, regulatory subunit B,						activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals	calcineurin complex|cytosol	calcium ion binding|calcium-dependent protein serine/threonine phosphatase activity|calmodulin binding				0					Pimecrolimus(DB00337)	gactgagaaataaaaaattaat	0.000													4	2	---	---	---	---	
PROKR1	10887	broad.mit.edu	37	2	68867371	68867371	+	Intron	DEL	A	-	-	rs148867696		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68867371delA	uc002ses.2	+									Q8TCW9	PKR1_HUMAN	Homo sapiens mRNA for GPR73, complete cds.							integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						tggtaaagtgaaaaaaaatat	0.020													4	2	---	---	---	---	
NFU1	27247	broad.mit.edu	37	2	69630525	69630525	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:69630525delT	uc002sfk.2	-						NFU1_uc002sfj.2_Intron|NFU1_uc002sfl.2_Intron|NFU1_uc002sfm.2_Intron|NFU1_uc010fdi.2_Intron|NFU1_uc002sfn.1_Intron	NM_001002755	NP_001002755	Q9UMS0	NFU1_HUMAN	HIRA interacting protein 5 isoform 2						iron-sulfur cluster assembly	cytosol|mitochondrion|nucleus	4 iron, 4 sulfur cluster binding|iron ion binding|protein binding				0						GTTTGATTCAttttttttttt	0.124													4	2	---	---	---	---	
EXOC6B	23233	broad.mit.edu	37	2	72958610	72958610	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72958610delA	uc010fep.2	-						EXOC6B_uc002sij.2_Intron	NM_015189	NP_056004	Q9Y2D4	EXC6B_HUMAN	SEC15-like 2						protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2						ATGAAGTCCTAAAATACAAGG	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	73390694	73390694	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73390694delT								RAB11FIP5 (50548 upstream) : NOTO (38692 downstream)																							tcactttgcctttacaactcc	0.070													4	2	---	---	---	---	
CCT7	10574	broad.mit.edu	37	2	73476774	73476774	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73476774delT	uc002siz.2	+						CCT7_uc002sja.2_Intron|CCT7_uc010yrf.1_Intron|CCT7_uc010feu.2_Intron|CCT7_uc010yrg.1_Intron|CCT7_uc010yrh.1_Intron|CCT7_uc010yri.1_Intron	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a						'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						TTCTATTTTGTTTTTTTTTTG	0.463													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	75142144	75142145	+	IGR	DEL	AG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:75142144_75142145delAG								HK2 (21670 upstream) : POLE4 (43630 downstream)																							ggagagaagaagagagagagag	0.119													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	76154776	76154776	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:76154776delT								C2orf3 (216665 upstream) : LRRTM4 (820082 downstream)																							TAGAAACTCATTTTTTTTAAT	0.269													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	76676325	76676327	+	IGR	DEL	ATG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:76676325_76676327delATG								C2orf3 (738214 upstream) : LRRTM4 (298531 downstream)																							tccttttcttatgaagacaccag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	78005161	78005161	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:78005161delT								LRRTM4 (255659 upstream) : SNAR-H (176872 downstream)																							ctgattctcctttatgggttg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	78019880	78019880	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:78019880delT								LRRTM4 (270378 upstream) : SNAR-H (162153 downstream)																							TAAAAATTCCTTTTTTTTTTT	0.393													4	2	---	---	---	---	
CTNNA2	1496	broad.mit.edu	37	2	80124173	80124173	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80124173delT	uc010ysh.1	+						CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1						axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TGAGATTATATTTTTTTTACA	0.398													4	2	---	---	---	---	
CTNNA2	1496	broad.mit.edu	37	2	80133962	80133962	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80133962delC	uc010ysh.1	+						CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1						axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						gtgcagagctccccaaagcat	0.000													4	2	---	---	---	---	
CTNNA2	1496	broad.mit.edu	37	2	80392426	80392426	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80392426delT	uc010ysh.1	+						CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1						axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						ttttctttcctttttttttta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	84070570	84070570	+	IGR	DEL	T	-	-	rs78034212		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:84070570delT								None (None upstream) : FUNDC2P2 (447236 downstream)																							ctatgaggggttttttttttt	0.000													4	2	---	---	---	---	
PLGLB2	5342	broad.mit.edu	37	2	88051016	88051016	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:88051016delA	uc002ssl.2	+							NM_001032392	NP_001027564	Q02325	PLGB_HUMAN	plasminogen-like B1 precursor							extracellular region					0						TCTATGCACCAAAATTTATGT	0.413													4	2	---	---	---	---	
RPIA	22934	broad.mit.edu	37	2	89006824	89006824	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89006824delT	uc002ste.2	+							NM_144563	NP_653164	P49247	RPIA_HUMAN	ribose 5-phosphate isomerase A						pentose-phosphate shunt, non-oxidative branch	cytosol	ribose-5-phosphate isomerase activity			ovary(1)	1		Acute lymphoblastic leukemia(2;0.000456)|all_hematologic(2;0.00287)				TGTGATTTTCTTTTTTTTTTG	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	90408405	90408405	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90408405delT	uc010fhm.2	+											Parts of antibodies, mostly variable regions.																		TCAAATAAGCTTTTTTCCCTC	0.338													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	90430929	90430929	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90430929delT	uc010fhm.2	+											Parts of antibodies, mostly variable regions.																		ACAGGAATAATTTTTGTCAAT	0.179													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	91695648	91695649	+	IGR	INS	-	GA	GA			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91695648_91695649insGA								None (None upstream) : LOC654342 (109543 downstream)																							GTGTAGTGTGTGTGTGTGGTTT	0.436													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	91765298	91765299	+	IGR	INS	-	A	A	rs142746952		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91765298_91765299insA								None (None upstream) : LOC654342 (39893 downstream)																							gctcactgaggaaaaaaaatct	0.040													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	95862412	95862412	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:95862412delG								ZNF2 (12350 upstream) : PROM2 (77789 downstream)																							GTCCACAAATGGTCATCCCTC	0.483													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	96603296	96603297	+	Intron	INS	-	TATT	TATT	rs140596918	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96603296_96603297insTATT	uc002sva.1	-						uc010yug.1_Intron					Homo sapiens cDNA FLJ41632 fis, clone FCBBF1000297, highly  similar to Human protein immuno-reactive with anti-PTH polyclonal antibodies mRNA.																		CATCTGGAGACTATCATTTGAC	0.386													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	97950268	97950269	+	RNA	DEL	AG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97950268_97950269delAG	uc010yvb.1	+	1		c.1970_1971delAG								Homo sapiens cDNA clone IMAGE:5217021, with apparent retained intron.																		ACTGAGTGACAGATAATCAGGA	0.465													3	3	---	---	---	---	
VWA3B	200403	broad.mit.edu	37	2	98841053	98841053	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98841053delA	uc002syo.2	+						VWA3B_uc002syj.2_Intron|VWA3B_uc002syk.1_Intron|VWA3B_uc002syl.1_Intron|VWA3B_uc002sym.2_Intron|VWA3B_uc002syn.1_Intron|VWA3B_uc010yvi.1_Intron|VWA3B_uc002syp.1_Intron|VWA3B_uc002syq.1_Intron|VWA3B_uc002syr.1_Intron	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B											ovary(3)|large_intestine(2)|skin(1)	6						gaattgtaagaaaaaaaaagt	0.000													4	2	---	---	---	---	
C2orf55	343990	broad.mit.edu	37	2	99517360	99517360	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99517360delC	uc002szf.1	-							NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990												0						CGGGAGGGTGCCTCACCAGTG	0.597													4	2	---	---	---	---	
EIF5B	9669	broad.mit.edu	37	2	100009235	100009235	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100009235delT	uc002tab.2	+						EIF5B_uc010yvq.1_5'Flank	NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B						regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						ctcttgtgactttttttttcc	0.000													6	4	---	---	---	---	
AFF3	3899	broad.mit.edu	37	2	100310994	100310994	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100310994delT	uc002tag.2	-						AFF3_uc002taf.2_Intron|AFF3_uc010fiq.1_Intron|AFF3_uc010yvr.1_Intron|AFF3_uc002tah.1_Intron	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						cagtgtgacattttttgcatt	0.204													4	2	---	---	---	---	
AFF3	3899	broad.mit.edu	37	2	100590667	100590668	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100590667_100590668insT	uc002tag.2	-						AFF3_uc002taf.2_Intron|AFF3_uc010fiq.1_Intron|AFF3_uc010yvr.1_Intron|AFF3_uc002tah.1_Intron|AFF3_uc010fir.1_Intron	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						AAATGTGATAATTTTTTTTAAT	0.312													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	103668121	103668121	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:103668121delT								TMEM182 (233985 upstream) : None (None downstream)																							ttttttatggttttttttaat	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	103783738	103783738	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:103783738delA								TMEM182 (349602 upstream) : None (None downstream)																							GGATCCCCCCAAAAAAAAACA	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	104192477	104192478	+	IGR	INS	-	A	A	rs150859734	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:104192477_104192478insA								TMEM182 (758341 upstream) : LOC150568 (858327 downstream)																							aaaacaaaacgaaaaaaactac	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	104346314	104346314	+	IGR	DEL	G	-	-	rs13029049	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:104346314delG								TMEM182 (912178 upstream) : LOC150568 (704491 downstream)																							caaaaaaaaagaaaacaaaag	0.000													2	4	---	---	---	---	
LOC150568	150568	broad.mit.edu	37	2	105120612	105120613	+	Intron	INS	-	AA	AA			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:105120612_105120613insAA	uc002tch.2	+							NR_015399				Homo sapiens cDNA FLJ30528 fis, clone BRAWH2001037.												0						CACGTCATAATAAAAAAAAATC	0.337													4	2	---	---	---	---	
UXS1	80146	broad.mit.edu	37	2	106734892	106734893	+	Intron	INS	-	A	A	rs139470766	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:106734892_106734893insA	uc002tdm.2	-						UXS1_uc002tdl.2_Intron|UXS1_uc002tdn.2_Intron|UXS1_uc002tdo.2_Intron|UXS1_uc010ywh.1_Intron	NM_025076	NP_079352	Q8NBZ7	UXS1_HUMAN	UDP-glucuronate decarboxylase 1						cellular metabolic process	Golgi cisterna membrane|integral to membrane	coenzyme binding|UDP-glucuronate decarboxylase activity			ovary(2)	2						CCACAGACCTCAGAGTCAGACT	0.416													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	108277267	108277268	+	IGR	DEL	AG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108277267_108277268delAG								ST6GAL2 (773704 upstream) : LOC729121 (162252 downstream)																							taggaaggcaagagagagagag	0.000													4	2	---	---	---	---	
LIMS1	3987	broad.mit.edu	37	2	109268872	109268883	+	Intron	DEL	GCTGAATGAAAA	-	-	rs112721053		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109268872_109268883delGCTGAATGAAAA	uc002teg.2	+						LIMS1_uc002tef.2_Intron|LIMS1_uc002teh.2_Intron|LIMS1_uc002tei.2_Intron|LIMS1_uc002tej.2_Intron|LIMS1_uc002tek.3_5'Flank	NM_004987	NP_004978	P48059	LIMS1_HUMAN	LIM and senescent cell antigen-like domains 1						cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0						agggcattgtgctgaatgaaaagccttaagat	0.000													4	2	---	---	---	---	
SH3RF3	344558	broad.mit.edu	37	2	109930355	109930356	+	Intron	INS	-	G	G	rs140145271	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109930355_109930356insG	uc010ywt.1	+						hsa-mir-4266|MI0015870_5'Flank	NM_001099289	NP_001092759	Q8TEJ3	SH3R3_HUMAN	SH3 domain containing ring finger 3								zinc ion binding			ovary(1)	1						AGGAGATATTTGAAAGGTGTGT	0.525													1	6	---	---	---	---	
ACOXL	55289	broad.mit.edu	37	2	111863995	111863995	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:111863995delT	uc010yxk.1	+						uc002tgs.1_Intron	NM_001142807	NP_001136279	Q9NUZ1	ACOXL_HUMAN	acyl-Coenzyme A oxidase-like 1						fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0						ttgctgaaacttttttttttc	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	112890403	112890404	+	IGR	DEL	CT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112890403_112890404delCT								TMEM87B (13508 upstream) : FBLN7 (5558 downstream)																							tccacagttcctctctctctct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	113100506	113100506	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113100506delT								ZC3H6 (2866 upstream) : RGPD8 (25460 downstream)																							GGATTTTCACTTTTTTTTTGA	0.204													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	113645738	113645738	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113645738delT								IL1B (51382 upstream) : IL1F7 (24810 downstream)																							AATCAGAGAGTTTTTTTTTTC	0.413													4	2	---	---	---	---	
IL1F6	27179	broad.mit.edu	37	2	113764833	113764833	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113764833delT	uc010yxr.1	+							NM_014440	NP_055255	Q9UHA7	IL36A_HUMAN	interleukin 1 family, member 6 (epsilon)						immune response|inflammatory response	extracellular space	cytokine activity|interleukin-1 receptor binding				0						TAAAAcagtgtttttcagcca	0.179													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	114430402	114430403	+	IGR	DEL	CA	-	-	rs150944255		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:114430402_114430403delCA								RABL2A (29428 upstream) : SLC35F5 (41528 downstream)																							tttcaattctcacagtttttct	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	114825231	114825231	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:114825231delA								ACTR3 (109064 upstream) : DPP10 (374668 downstream)																							tcctgtgtttaaaactgtctc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	118465213	118465213	+	IGR	DEL	A	-	-	rs77918794		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118465213delA								None (None upstream) : DDX18 (107042 downstream)																							actccgtctcaaaaaaaaaac	0.144													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	118512226	118512226	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118512226delA								None (None upstream) : DDX18 (60029 downstream)																							GTGATGTGGTAACAAAATGAG	0.408													4	2	---	---	---	---	
TMEM177	80775	broad.mit.edu	37	2	120453360	120453360	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120453360delT	uc002tme.2	+									Q53S58	TM177_HUMAN	Homo sapiens cDNA FLJ32751 fis, clone TESTI2001621.							integral to membrane				ovary(1)	1	Colorectal(110;0.196)					GTTGATCCTCTTTTGAGAGTG	0.070													4	2	---	---	---	---	
EPB41L5	57669	broad.mit.edu	37	2	120865971	120865971	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120865971delT	uc002tmg.2	+						EPB41L5_uc010fll.2_Intron|EPB41L5_uc010flm.2_Intron	NM_020909	NP_065960	Q9HCM4	E41L5_HUMAN	erythrocyte membrane protein band 4.1 like 5							cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1						TTTTAACTACTTTTAATAAAG	0.294													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	121890364	121890365	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:121890364_121890365insT								GLI2 (140136 upstream) : TFCP2L1 (83801 downstream)																							ttttttttttctttttttttgc	0.203													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	122565296	122565296	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122565296delT								TSN (39870 upstream) : None (None downstream)																							ACTAGCTCAAttttttttttt	0.239													7	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	123592734	123592735	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:123592734_123592735insT								None (None upstream) : None (None downstream)																							aaccatctctctttttttttgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	124726813	124726814	+	IGR	INS	-	T	T	rs146648137	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:124726813_124726814insT								None (None upstream) : CNTNAP5 (56050 downstream)																							TACACTGAGCATTTTTTTTCTT	0.337													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	125727160	125727160	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:125727160delA								CNTNAP5 (54299 upstream) : None (None downstream)																							AAAGATATGGAAAAAAGTCTT	0.418													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	126069077	126069077	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:126069077delA								CNTNAP5 (396216 upstream) : None (None downstream)																							CAAAGTATCTAAAAAAAAATT	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	127389083	127389083	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:127389083delA								None (None upstream) : GYPC (24601 downstream)																							tcatactggcaaaaaaaaaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	128106743	128106743	+	IGR	DEL	T	-	-	rs111941552		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128106743delT								MAP3K2 (5938 upstream) : PROC (69274 downstream)																							cttttctttcttttttttttt	0.100													4	2	---	---	---	---	
IWS1	55677	broad.mit.edu	37	2	128272325	128272325	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128272325delC	uc002ton.2	-						IWS1_uc010yzl.1_Intron|IWS1_uc010fma.2_Intron	NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog						transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		cagcagctgacccgcctggct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	128835697	128835697	+	IGR	DEL	A	-	-	rs111934191		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128835697delA								SAP130 (50064 upstream) : UGGT1 (13057 downstream)																							accttgtttcaaaaaaaaaaa	0.000													4	3	---	---	---	---	
ARHGEF4	50649	broad.mit.edu	37	2	131689301	131689301	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:131689301delT	uc002tsa.1	+						ARHGEF4_uc010fmw.1_Intron|ARHGEF4_uc002tsb.1_Intron|ARHGEF4_uc010fmx.1_Intron|ARHGEF4_uc002trz.1_Intron	NM_015320	NP_056135	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor 4 isoform						apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|lamellipodium assembly|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|ruffle membrane	protein domain specific binding|Rac guanyl-nucleotide exchange factor activity			breast(3)|ovary(2)|skin(1)	6		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		GACAACATGATTTTTTGCATG	0.338													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	132152072	132152072	+	IGR	DEL	G	-	-	rs79020808		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:132152072delG								LOC150786 (30341 upstream) : LOC401010 (47662 downstream)																							ACATTAAAAAGGGGGATCCTG	0.423													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	132474721	132474721	+	IGR	DEL	T	-	-	rs142750014		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:132474721delT								CCDC74A (183484 upstream) : C2orf27A (5343 downstream)																							atcttttgtattttttatttc	0.000													1	6	---	---	---	---	
NCRNA00164	554226	broad.mit.edu	37	2	132981967	132981968	+	Intron	INS	-	C	C	rs148657484		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:132981967_132981968insC	uc002ttj.3	-							NR_027020				Homo sapiens non-protein coding RNA 164, mRNA (cDNA clone IMAGE:5169389), with apparent retained intron.												0						atttcatagagccttttgaaac	0.000													4	5	---	---	---	---	
NCRNA00164	554226	broad.mit.edu	37	2	133018024	133018024	+	5'Flank	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133018024delT	uc002ttj.3	-							NR_027020				Homo sapiens non-protein coding RNA 164, mRNA (cDNA clone IMAGE:5169389), with apparent retained intron.												0						tcctTtgccatccccatcaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	133024164	133024165	+	IGR	INS	-	ACAG	ACAG	rs141827484	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133024164_133024165insACAG								NCRNA00164 (8622 upstream) : GPR39 (149982 downstream)																							cagacacacacagagagagaca	0.000													4	3	---	---	---	---	
NCKAP5	344148	broad.mit.edu	37	2	133529251	133529252	+	Intron	INS	-	T	T	rs146366872		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133529251_133529252insT	uc002ttp.2	-						NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1								protein binding				0						gatgctaattgttttttttttt	0.000													1	6	---	---	---	---	
NCKAP5	344148	broad.mit.edu	37	2	134184457	134184457	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:134184457delT	uc002ttp.2	-						NCKAP5_uc002ttq.2_Intron|NCKAP5_uc002ttt.1_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1								protein binding				0						caaaagtctattttaaaTTTT	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	134756452	134756452	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:134756452delT								NCKAP5 (430421 upstream) : MGAT5 (255378 downstream)																							aatttttgtattttttgtaga	0.000													4	2	---	---	---	---	
MGAT5	4249	broad.mit.edu	37	2	135069103	135069104	+	Intron	DEL	TC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135069103_135069104delTC	uc002ttv.1	+							NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V						post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		CAAACTCCTGTCTCTCTCTCTC	0.455													3	3	---	---	---	---	
TMEM163	81615	broad.mit.edu	37	2	135275522	135275522	+	Intron	DEL	A	-	-	rs79898467		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135275522delA	uc002ttx.2	-						TMEM163_uc002tty.2_Intron	NM_030923	NP_112185	Q8TC26	TM163_HUMAN	transmembrane protein 163							integral to membrane					0				BRCA - Breast invasive adenocarcinoma(221;0.154)		TGTCAGATGGAAAAAAAAAAA	0.383													4	2	---	---	---	---	
RAB3GAP1	22930	broad.mit.edu	37	2	135925446	135925446	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135925446delT	uc002tuj.2	+						RAB3GAP1_uc010fnf.2_Intron|RAB3GAP1_uc010fng.2_Intron|RAB3GAP1_uc010fnh.1_Intron	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein							centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		GCCAAAACAATTTTTTTTCCC	0.328													4	2	---	---	---	---	
THSD7B	80731	broad.mit.edu	37	2	138112402	138112402	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138112402delT	uc002tva.1	+						THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TGAGCAGCTGTTTTTTTTTTT	0.338													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	140132453	140132453	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:140132453delA								NXPH2 (594642 upstream) : LRP1B (856543 downstream)																							CAGATACAAGAAAAAAAAACA	0.343													4	2	---	---	---	---	
LRP1B	53353	broad.mit.edu	37	2	141949988	141949988	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141949988delT	uc002tvj.1	-						LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GTATTGAGTATTTTACCTTAA	0.249										TSP Lung(27;0.18)			4	2	---	---	---	---	
LRP1B	53353	broad.mit.edu	37	2	142850220	142850221	+	Intron	INS	-	G	G	rs68085426	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:142850220_142850221insG	uc002tvj.1	-						LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		tgtgtgtgtgtTTTTGTATGGG	0.297										TSP Lung(27;0.18)			4	2	---	---	---	---	
LRP1B	53353	broad.mit.edu	37	2	142850221	142850222	+	Intron	INS	-	G	G	rs68085426	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:142850221_142850222insG	uc002tvj.1	-						LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		gtgtgtgtgtTTTTGTATGGGA	0.297										TSP Lung(27;0.18)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	143079304	143079304	+	IGR	DEL	C	-	-	rs145846398		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:143079304delC								LRP1B (190034 upstream) : KYNU (555891 downstream)																							ttgctgcagaccccatgcaga	0.104													1	7	---	---	---	---	
ARHGAP15	55843	broad.mit.edu	37	2	144371939	144371939	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:144371939delT	uc002tvm.3	+						ARHGAP15_uc002tvn.2_Intron	NM_018460	NP_060930	Q53QZ3	RHG15_HUMAN	ARHGAP15						regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)		atttatcttatttttacccca	0.040													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	144596569	144596569	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:144596569delA								ARHGAP15 (70649 upstream) : GTDC1 (107014 downstream)																							TGGAATCTGGAAAAAAAAAAC	0.493													6	3	---	---	---	---	
GTDC1	79712	broad.mit.edu	37	2	145005642	145005642	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:145005642delT	uc002tvp.2	-						GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Intron|GTDC1_uc010fnn.2_Intron|GTDC1_uc002tvs.2_Intron|GTDC1_uc010fno.2_Intron|GTDC1_uc002tvt.1_Intron	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1						biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		TAAGTTTTAATTTAAAAGaaa	0.020													4	2	---	---	---	---	
GTDC1	79712	broad.mit.edu	37	2	145064229	145064229	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:145064229delA	uc010fnn.2	-						GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Intron|GTDC1_uc002tvs.2_Intron|GTDC1_uc010fno.2_Intron|GTDC1_uc002tvt.1_Intron	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1						biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		agccccccagaaaaaaaaagc	0.000													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	148172184	148172184	+	IGR	DEL	T	-	-	rs112223518		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:148172184delT								PABPC1P2 (823627 upstream) : ACVR2A (429902 downstream)																							ttgttcattcttttttttttc	0.000													3	3	---	---	---	---	
KIF5C	3800	broad.mit.edu	37	2	149814107	149814107	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:149814107delA	uc010zbu.1	+						KIF5C_uc002tws.1_Intron	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C						microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		TTGTTCTAGTaaaaaaaaaaa	0.313													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	150118914	150118914	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:150118914delA								LYPD6B (47142 upstream) : LYPD6 (68199 downstream)																							TTGCTTTCTGAAAAAAAAAAA	0.333													2	4	---	---	---	---	
LYPD6	130574	broad.mit.edu	37	2	150267128	150267129	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:150267128_150267129insA	uc002twy.2	+						LYPD6_uc010fnt.2_Intron|LYPD6_uc002twz.2_Intron|LYPD6_uc002txa.2_Intron	NM_194317	NP_919298	Q86Y78	LYPD6_HUMAN	LY6/PLAUR domain containing 6 precursor							extracellular region					0				BRCA - Breast invasive adenocarcinoma(221;0.0667)		CATGTCAATAGAAAAAAAAAAG	0.366													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	152019614	152019615	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152019614_152019615insC								RND3 (675434 upstream) : RBM43 (85114 downstream)																							agaaaccaatacccccaaaata	0.193													4	2	---	---	---	---	
PRPF40A	55660	broad.mit.edu	37	2	153513724	153513724	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:153513724delA	uc002tyh.3	-						PRPF40A_uc002tyg.3_Intron	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3						mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						TTTCAGCTCTAAAAAAAAACC	0.398													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	155798870	155798870	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155798870delT								KCNJ3 (85856 upstream) : None (None downstream)																							AAACCACAAGTTTTTTTTAAT	0.254													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	156106837	156106838	+	IGR	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:156106837_156106838delGT								KCNJ3 (393823 upstream) : None (None downstream)																							aggaaacaacgtgtgtgtgtgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	156409527	156409527	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:156409527delA								KCNJ3 (696513 upstream) : NR4A2 (771419 downstream)																							TCCAAAAGGTAAAAAACAAAA	0.284													4	2	---	---	---	---	
GPD2	2820	broad.mit.edu	37	2	157336373	157336373	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:157336373delA	uc002tzf.3	+						GPD2_uc010zch.1_Intron|GPD2_uc002tzd.3_Intron	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,						cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						CAGTTTCCACAAAGGGAGCTT	0.438													4	2	---	---	---	---	
ACVR1	90	broad.mit.edu	37	2	158604547	158604548	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158604547_158604548insT	uc002tzm.3	-						ACVR1_uc002tzn.3_Intron|ACVR1_uc010fog.2_Intron	NM_001111067	NP_001104537	Q04771	ACVR1_HUMAN	activin A receptor, type I precursor						BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)	CTCTACCTTCCTTTTTTTTCTT	0.361													4	2	---	---	---	---	
BAZ2B	29994	broad.mit.edu	37	2	160196430	160196430	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160196430delA	uc002uao.2	-						BAZ2B_uc002uap.2_Intron	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						agaggctgagaagggtaggga	0.000													4	2	---	---	---	---	
BAZ2B	29994	broad.mit.edu	37	2	160445880	160445880	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160445880delA	uc002uao.2	-						BAZ2B_uc002uap.2_Intron|BAZ2B_uc002uas.1_Intron|BAZ2B_uc002uau.1_Intron	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						gattccttccaaaaaaaaaac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	161646876	161646876	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:161646876delA								RBMS1 (296558 upstream) : TANK (346590 downstream)																							GTATTTTTCTAAGTCAAGCTT	0.244													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	162138574	162138575	+	IGR	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162138574_162138575delCA								TANK (45892 upstream) : PSMD14 (26211 downstream)																							ccccaggcctcagggactctcc	0.079													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	162391815	162391816	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162391815_162391816insA								TBR1 (110242 upstream) : SLC4A10 (89029 downstream)																							gttgaaattgtaaaaaaaaagg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	162992636	162992636	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162992636delT								DPP4 (61584 upstream) : GCG (6753 downstream)																							gagttagaacttttttttgtt	0.000													4	2	---	---	---	---	
FIGN	55137	broad.mit.edu	37	2	164464729	164464730	+	3'UTR	DEL	TC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:164464729_164464730delTC	uc002uck.1	-	3						NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin							nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						AAGAGTGGAGTCAAAAAGAAGG	0.287													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	164691481	164691481	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:164691481delA								FIGN (98968 upstream) : GRB14 (657852 downstream)																							atcaaatgataataaactaag	0.050													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	164740121	164740122	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:164740121_164740122insC								FIGN (147608 upstream) : GRB14 (609211 downstream)																							AAAATAAATTTCCCCTTTCTCA	0.401													4	2	---	---	---	---	
GALNT3	2591	broad.mit.edu	37	2	166637159	166637159	+	Intron	DEL	G	-	-	rs11686411	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166637159delG	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						gggtttttttgttgttgttgt	0.000													2	4	---	---	---	---	
XIRP2	129446	broad.mit.edu	37	2	167836024	167836025	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167836024_167836025insT	uc002udx.2	+						XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1						actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						taagagtagggtttttttttta	0.000													4	2	---	---	---	---	
LASS6	253782	broad.mit.edu	37	2	169325407	169325408	+	Intron	INS	-	G	G	rs72532067		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169325407_169325408insG	uc002ueb.1	+						LASS6_uc002uec.1_Intron	NM_203463	NP_982288	Q6ZMG9	CERS6_HUMAN	longevity assurance homolog 6							endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			skin(1)	1						ACTCATGTAATCACTTTGCTGA	0.421													3	4	---	---	---	---	
LASS6	253782	broad.mit.edu	37	2	169416423	169416423	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169416423delT	uc002ueb.1	+						LASS6_uc002uec.1_Intron	NM_203463	NP_982288	Q6ZMG9	CERS6_HUMAN	longevity assurance homolog 6							endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			skin(1)	1						GTCACGTGGCTTAGTTTTGTT	0.308													4	2	---	---	---	---	
LRP2	4036	broad.mit.edu	37	2	170128511	170128511	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170128511delT	uc002ues.2	-						LRP2_uc010zdf.1_Intron	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2						hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AGCAAAATTATTAGACAACGC	0.343													4	2	---	---	---	---	
METTL8	79828	broad.mit.edu	37	2	172184495	172184496	+	Intron	DEL	CT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172184495_172184496delCT	uc010zdo.1	-						METTL8_uc002ugu.3_Intron|METTL8_uc002ugv.3_Intron|METTL8_uc002ugt.3_Intron|METTL8_uc002ugs.3_Intron|METTL8_uc010zdp.1_Intron	NM_024770	NP_079046	B3KW44	B3KW44_HUMAN	methyltransferase like 8								methyltransferase activity			ovary(1)	1						AAATTCTTTCCTCTCAGCTATC	0.391													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	174509519	174509519	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:174509519delA								CDCA7 (275801 upstream) : SP3 (263740 downstream)																							atctaatgagaaaaaaaaaga	0.000													6	3	---	---	---	---	
OLA1	29789	broad.mit.edu	37	2	174941815	174941815	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:174941815delA	uc002uih.2	-						OLA1_uc002uii.2_Intron|OLA1_uc010fqq.2_Intron|OLA1_uc002uij.2_Intron|OLA1_uc002uik.2_Intron|OLA1_uc010fqr.2_Intron	NM_013341	NP_037473	Q9NTK5	OLA1_HUMAN	Obg-like ATPase 1 isoform 1						ATP catabolic process	cytoplasm	ATP binding|GTP binding|hydrolase activity|protein binding			ovary(1)|breast(1)	2						ACACTGGTTGAAAAAAAAAAT	0.343													4	2	---	---	---	---	
GPR155	151556	broad.mit.edu	37	2	175330203	175330203	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:175330203delT	uc002uit.2	-						GPR155_uc002uiu.2_Intron|GPR155_uc002uiv.2_Intron|GPR155_uc010fqs.2_Intron	NM_001033045	NP_001028217	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155 isoform 9						intracellular signal transduction|transmembrane transport	integral to membrane				ovary(1)	1						CATTCCCGCCTTTCTCCATCT	0.368													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	176113806	176113806	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176113806delT								ATP5G3 (67316 upstream) : KIAA1715 (676604 downstream)																							tttagatgcctttttagtttt	0.015													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	176297537	176297537	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176297537delA								ATP5G3 (251047 upstream) : KIAA1715 (492873 downstream)																							GACTAAAGGTAAAAAAAAAGC	0.219													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	176650964	176650965	+	IGR	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176650964_176650965delGT								ATP5G3 (604474 upstream) : KIAA1715 (139445 downstream)																							TGAAAACAACgtgtgtgtgtgt	0.327													4	2	---	---	---	---	
KIAA1715	80856	broad.mit.edu	37	2	176844298	176844299	+	Intron	DEL	AA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176844298_176844299delAA	uc002ukc.1	-						KIAA1715_uc010zer.1_Intron|KIAA1715_uc010fqw.1_Intron|KIAA1715_uc010zes.1_Intron|KIAA1715_uc002ukd.1_Intron|KIAA1715_uc010zet.1_Intron	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark							integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			actctgtctcaaaaaaaaaaaa	0.104													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	178029384	178029384	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:178029384delA								MIR1246 (563604 upstream) : HNRNPA3 (48038 downstream)																							ATGCTGATGGAAAAAAAAAAT	0.532											OREG0015097	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	2	4	---	---	---	---	
NFE2L2	4780	broad.mit.edu	37	2	178214182	178214183	+	Intron	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:178214182_178214183delGT	uc002uli.3	-						LOC100130691_uc002ulk.1_Intron	NM_001145412	NP_001138884	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 2						transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			AGTTGGGGTGGTGTGTGTGTGA	0.371			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			4	2	---	---	---	---	
CCDC141	285025	broad.mit.edu	37	2	179804384	179804384	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179804384delG	uc002ung.2	-									Q6ZP82	CC141_HUMAN	SubName: Full=Putative uncharacterized protein CCDC141; SubName: Full=Putative uncharacterized protein FLJ39502;								protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CATGTGAGGTGGGTAGAATAC	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	180772819	180772820	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180772819_180772820delTG								ZNF385B (46587 upstream) : CWC22 (36784 downstream)																							aatattcctctgtgtgtgtgtg	0.000													4	2	---	---	---	---	
ZNF804A	91752	broad.mit.edu	37	2	185745328	185745328	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:185745328delT	uc002uph.2	+							NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A							intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GACAGACAACTTTTTTTTGAG	0.174													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	186845293	186845294	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:186845293_186845294insA								None (None upstream) : ZC3H15 (505591 downstream)																							AACAAACAAACAAAAAAAAACA	0.351													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	187043539	187043539	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:187043539delA								None (None upstream) : ZC3H15 (307346 downstream)																							ATCAATTACCAAAAAAAAAAT	0.214													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	188626345	188626346	+	IGR	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:188626345_188626346insG								TFPI (207126 upstream) : GULP1 (530258 downstream)																							TGTCCAGTCAAGGAAAAAACAA	0.322													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	189797167	189797167	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189797167delA								DIRC1 (142336 upstream) : COL3A1 (41932 downstream)																							tcaatccttcaaaaaatatca	0.080													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	190258982	190258983	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190258982_190258983insA								COL5A2 (214377 upstream) : WDR75 (47176 downstream)																							GAAAGATTTTGAAAAAAAAACA	0.213													4	2	---	---	---	---	
MYO1B	4430	broad.mit.edu	37	2	192289178	192289178	+	3'UTR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:192289178delA	uc010fsg.2	+	31					MYO1B_uc002usq.2_3'UTR|MYO1B_uc002usr.2_3'UTR|MYO1B_uc002usu.2_3'UTR|MYO1B_uc002usv.2_3'UTR	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1							myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			GAAGGTTTAGAAATGGTGAGA	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	192479862	192479862	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:192479862delA								MYO1B (189747 upstream) : OBFC2A (62936 downstream)																							GTGGAGAGGCAAAGGGTAAGG	0.159													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	194504213	194504213	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:194504213delT								PCGEM1 (862592 upstream) : None (None downstream)																							tatgtgtctctttttatgcta	0.000													4	4	---	---	---	---	
DNAH7	56171	broad.mit.edu	37	2	196602448	196602449	+	3'UTR	INS	-	TTTA	TTTA	rs150636011	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196602448_196602449insTTTA	uc002utj.3	-	65					DNAH7_uc002uti.3_3'UTR	NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TTTCTTTAGTCTTTATTTCAGA	0.297													4	2	---	---	---	---	
DNAH7	56171	broad.mit.edu	37	2	196754757	196754757	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196754757delT	uc002utj.3	-							NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TAATTCAACCTTTTTTGTATA	0.368													4	2	---	---	---	---	
PLCL1	5334	broad.mit.edu	37	2	198837132	198837132	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198837132delT	uc010fsp.2	+						PLCL1_uc002uuv.3_Intron	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;						intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	GAAAAGGAGATTTTTTTTCCC	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	201043520	201043520	+	IGR	DEL	A	-	-	rs35608644		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201043520delA								C2orf47 (214675 upstream) : SPATS2L (127084 downstream)																							cagcattcatacctccatggc	0.000													1	10	---	---	---	---	
FAM126B	285172	broad.mit.edu	37	2	201841245	201841245	+	3'UTR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201841245delC	uc002uws.3	-	12					FAM126B_uc002uwu.2_3'UTR|FAM126B_uc002uwv.2_3'UTR	NM_173822	NP_776183	Q8IXS8	F126B_HUMAN	hypothetical protein LOC285172							intracellular				ovary(1)	1						AAAATGGACTCCACTTCATTA	0.299													4	2	---	---	---	---	
CASP10	843	broad.mit.edu	37	2	202052152	202052152	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202052152delT	uc002uxl.1	+						CASP10_uc002uxi.1_Intron|CASP10_uc010zhn.1_Intron|CASP10_uc002uxj.1_Intron|CASP10_uc002uxk.1_Intron|CASP10_uc010fta.1_Intron|CASP10_uc002uxm.1_Intron|CASP10_uc010ftb.1_Intron	NM_032974	NP_116756	Q92851	CASPA_HUMAN	caspase 10 isoform b preproprotein						apoptosis|induction of apoptosis by extracellular signals|proteolysis	cytosol|plasma membrane	cysteine-type endopeptidase activity|identical protein binding|protein binding			skin(3)|ovary(1)|pancreas(1)|breast(1)	6						GTTTTATGCCTTTTTTTTTTT	0.259													3	3	---	---	---	---	
ALS2	57679	broad.mit.edu	37	2	202629057	202629057	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202629057delA	uc002uyo.2	-						ALS2_uc002uyp.3_Intron|ALS2_uc002uyq.2_Intron|ALS2_uc002uyr.2_Intron	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1						cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						tggagcatataaaaaatagtg	0.000													4	2	---	---	---	---	
CDK15	65061	broad.mit.edu	37	2	202746625	202746626	+	Intron	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202746625_202746626delCA	uc002uyt.2	+						CDK15_uc002uys.2_Intron|CDK15_uc010ftn.1_Intron|CDK15_uc002uyu.1_Intron	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2								ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding			breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)	catacacacgcacacacacaca	0.386													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	202983324	202983324	+	Intron	DEL	T	-	-	rs5837805		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202983324delT	uc010zhu.1	+											SubName: Full=cDNA FLJ52575;																		GGGCAGTTTCTGTTCTGGGCT	0.428													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	205167655	205167655	+	IGR	DEL	A	-	-	rs35702295		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:205167655delA								ICOS (341359 upstream) : PARD3B (242861 downstream)																							atttgctagcaaaaaaaacaa	0.134													4	2	---	---	---	---	
PARD3B	117583	broad.mit.edu	37	2	205504339	205504339	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:205504339delA	uc002var.1	+						PARD3B_uc010fub.1_Intron|PARD3B_uc002vao.1_Intron|PARD3B_uc002vap.1_Intron|PARD3B_uc002vaq.1_Intron	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform						cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		tattataagtaatctagagat	0.000													4	2	---	---	---	---	
KLF7	8609	broad.mit.edu	37	2	207977971	207977971	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207977971delT	uc002vbz.1	-						KLF7_uc002vca.1_Intron|KLF7_uc010zix.1_Intron	NM_003709	NP_003700	O75840	KLF7_HUMAN	Kruppel-like factor 7 (ubiquitous)						regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			central_nervous_system(1)|skin(1)	2				LUSC - Lung squamous cell carcinoma(261;0.0856)|Lung(261;0.166)|Epithelial(149;0.173)		ATTTTGCCAGTTTTTTTTTCC	0.269													5	3	---	---	---	---	
FAM119A	151194	broad.mit.edu	37	2	208486305	208486306	+	Intron	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208486305_208486306delGT	uc002vcf.2	-						FAM119A_uc002vce.2_Intron|FAM119A_uc010fuk.1_Intron|FAM119A_uc002vcg.3_Intron	NM_145280	NP_660323	Q8WXB1	MT21A_HUMAN	hypothetical protein LOC151194							integral to membrane	methyltransferase activity				0				LUSC - Lung squamous cell carcinoma(261;0.0705)|Epithelial(149;0.131)|Lung(261;0.135)		AAATAACAGAGTGTGTGTGTGT	0.431													4	3	---	---	---	---	
PLEKHM3	389072	broad.mit.edu	37	2	208699667	208699668	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208699667_208699668insT	uc002vcl.2	-							NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,						intracellular signal transduction		metal ion binding			ovary(1)	1						TCAACAACTTGttttttttttt	0.168													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	209894483	209894483	+	IGR	DEL	T	-	-	rs34562184		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:209894483delT								PTH2R (189665 upstream) : MAP2 (394288 downstream)																							ACTCTTAGAATTTATTTTCTT	0.323													0	7	---	---	---	---	
ERBB4	2066	broad.mit.edu	37	2	212552299	212552300	+	Intron	INS	-	TGTT	TGTT	rs149343737	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:212552299_212552300insTGTT	uc002veg.1	-						ERBB4_uc002veh.1_Intron|ERBB4_uc010zji.1_Intron|ERBB4_uc010zjj.1_Intron|ERBB4_uc010fut.1_Intron	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene						cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		tttttctgtggtgtttggctgg	0.000										TSP Lung(8;0.080)			3	4	---	---	---	---	
ERBB4	2066	broad.mit.edu	37	2	213118450	213118450	+	Intron	DEL	A	-	-	rs34132686		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:213118450delA	uc002veg.1	-						ERBB4_uc002veh.1_Intron|ERBB4_uc010zji.1_Intron|ERBB4_uc010zjj.1_Intron|ERBB4_uc010fut.1_Intron	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene						cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		GGTTGCCGTTAAAAAGTTAGT	0.179										TSP Lung(8;0.080)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	216220537	216220537	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:216220537delC								ATIC (6060 upstream) : FN1 (4644 downstream)																							gattacggctccatctttccc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	216536777	216536777	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:216536777delA	uc002vfm.1	-						uc002vfn.1_Intron					Homo sapiens cDNA FLJ34546 fis, clone HLUNG2008959.																		tgtctaaaagaaaaaaaaaaa	0.070													4	2	---	---	---	---	
XRCC5	7520	broad.mit.edu	37	2	216979899	216979900	+	Intron	DEL	TG	-	-	rs113836901		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:216979899_216979900delTG	uc002vfy.2	+						XRCC5_uc002vfz.2_5'Flank	NM_021141	NP_066964	P13010	XRCC5_HUMAN	ATP-dependent DNA helicase II						double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|provirus integration|telomere maintenance|transcription, DNA-dependent	Ku70:Ku80 complex|nonhomologous end joining complex|nuclear telomere cap complex|nucleoplasm	ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|telomeric DNA binding|transcription regulatory region DNA binding			lung(1)|kidney(1)	2		Renal(323;0.0328)		Epithelial(149;9.78e-06)|all cancers(144;0.000632)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.0117)		tcgtttcaattgtttacttcga	0.020								Direct_reversal_of_damage|NHEJ					4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	217657399	217657400	+	IGR	INS	-	A	A	rs140502762	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:217657399_217657400insA								IGFBP5 (97127 upstream) : TNP1 (66784 downstream)																							CTTTGGTTGAGAATCAGGAATG	0.480													4	4	---	---	---	---	
DIRC3	729582	broad.mit.edu	37	2	218604777	218604777	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:218604777delT	uc002vgo.2	-							NR_026597				Homo sapiens cDNA FLJ14199 fis, clone NT2RP3002713.												0						ATTTTGCAAATTTTTTTTGTA	0.373													4	2	---	---	---	---	
WNT10A	80326	broad.mit.edu	37	2	219751995	219751996	+	Intron	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219751995_219751996delGT	uc002vjd.1	+							NM_025216	NP_079492	Q9GZT5	WN10A_HUMAN	wingless-type MMTV integration site family,						anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to transforming growth factor beta stimulus|female gonad development|hair follicle morphogenesis|odontogenesis|regulation of odontogenesis of dentine-containing tooth|sebaceous gland development|skin development|tongue development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			lung(1)|skin(1)	2		Renal(207;0.0474)		Epithelial(149;4.26e-07)|all cancers(144;8.8e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGTGGTGGCAGTGTGTGTGTGT	0.218													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	221357561	221357561	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:221357561delC								SLC4A3 (850860 upstream) : EPHA4 (925188 downstream)																							GCCCTGTTTTCCCAAGGAATG	0.398													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	222523801	222523801	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:222523801delA								EPHA4 (84879 upstream) : PAX3 (540806 downstream)																							actggattttaaatcttagac	0.015													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	223839042	223839043	+	IGR	INS	-	CA	CA			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:223839042_223839043insCA								ACSL3 (29688 upstream) : KCNE4 (77819 downstream)																							acgcacacgcgcacacacacac	0.223													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	224231701	224231701	+	IGR	DEL	T	-	-	rs76060077		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224231701delT								KCNE4 (311348 upstream) : SCG2 (229959 downstream)																							caacagtctattttttttttc	0.075													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	224987877	224987878	+	IGR	INS	-	T	T	rs150704101	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224987877_224987878insT								SERPINE2 (83841 upstream) : FAM124B (255538 downstream)																							CTTTTGGTGGATTTTTTAAGCT	0.351													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	225157923	225157924	+	IGR	INS	-	AAAAC	AAAAC			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225157923_225157924insAAAAC								SERPINE2 (253887 upstream) : FAM124B (85492 downstream)																							Aaaaacaaacaaaaacaaaaca	0.173													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	225292481	225292481	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225292481delC								FAM124B (25770 upstream) : CUL3 (42388 downstream)																							CTGTGCGGGGCCAGCAAAGCC	0.498													4	2	---	---	---	---	
DOCK10	55619	broad.mit.edu	37	2	225871847	225871847	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225871847delA	uc010fwz.1	-						DOCK10_uc002vod.1_Intron	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10								GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		cttacgaaagaaaaaggtggt	0.070													4	2	---	---	---	---	
KIAA1486	57624	broad.mit.edu	37	2	226504192	226504192	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:226504192delT	uc002voe.2	+						KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Intron	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624											ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		catttttttctttttttttgg	0.000													4	2	---	---	---	---	
KIAA1486	57624	broad.mit.edu	37	2	226567015	226567015	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:226567015delT	uc002vof.1	+							NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624											ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		ATGTGGACCATTTTTTACTAA	0.169													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	226790307	226790307	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:226790307delT								KIAA1486 (194836 upstream) : IRS1 (805727 downstream)																							atctacagtgtttttgagtat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	228271505	228271506	+	IGR	INS	-	TC	TC			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228271505_228271506insTC								TM4SF20 (27483 upstream) : AGFG1 (65382 downstream)																							TTTGTTTCTTTTCTCTCTGAGC	0.302													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	228273539	228273539	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228273539delA								TM4SF20 (29517 upstream) : AGFG1 (63349 downstream)																							catctcaaagaaaaaaaaaaT	0.159													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	228444629	228444629	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228444629delA								AGFG1 (18691 upstream) : C2orf83 (30178 downstream)																							GGGAAGTGTTAGGTCTTCTGT	0.408													4	2	---	---	---	---	
WDR69	164781	broad.mit.edu	37	2	228788185	228788185	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228788185delA	uc002vpn.1	+						WDR69_uc010zlw.1_Intron|WDR69_uc002vpo.1_Intron	NM_178821	NP_849143	Q8N136	WDR69_HUMAN	WD repeat domain 69											breast(1)	1		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;1.22e-10)|all cancers(144;8.11e-08)|Lung(261;0.011)|LUSC - Lung squamous cell carcinoma(224;0.0148)		TGAAGGTGAGAAAACCAGTAG	0.259													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	229822546	229822546	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:229822546delG								SPHKAP (776185 upstream) : PID1 (66144 downstream)																							attttaatctgggaccctgtg	0.015													4	2	---	---	---	---	
FBXO36	130888	broad.mit.edu	37	2	230891216	230891216	+	Intron	DEL	T	-	-	rs35521008		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:230891216delT	uc010fxi.1	+							NM_174899	NP_777559	Q8NEA4	FBX36_HUMAN	F-box protein 36											ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0179)|Lung NSC(271;0.0804)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;7.56e-14)|all cancers(144;7.74e-11)|Lung(119;0.00488)|LUSC - Lung squamous cell carcinoma(224;0.008)		tcattacagctttttaaacca	0.000													2	4	---	---	---	---	
GPR55	9290	broad.mit.edu	37	2	231810090	231810091	+	Intron	INS	-	CAAA	CAAA	rs144644083	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231810090_231810091insCAAA	uc010fxs.1	-							NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55						activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		GAATGCACTCCCAATGACCCAG	0.302													2	7	---	---	---	---	
DIS3L2	129563	broad.mit.edu	37	2	232874131	232874132	+	Intron	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232874131_232874132delGT	uc010fxz.2	+						DIS3L2_uc002vsm.3_Intron	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.								exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)		tctccatggagtgtgtgtgtgt	0.000													6	3	---	---	---	---	
EFHD1	80303	broad.mit.edu	37	2	233546020	233546020	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233546020delA	uc002vtc.2	+						EFHD1_uc010fyf.2_Intron|EFHD1_uc002vtd.2_Intron	NM_025202	NP_079478	Q9BUP0	EFHD1_HUMAN	EF-hand domain family, member D1								calcium ion binding|protein binding				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)		CTGTATCCTGAAAAAAAAAGT	0.363													6	3	---	---	---	---	
NGEF	25791	broad.mit.edu	37	2	233765034	233765035	+	Intron	INS	-	CA	CA			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233765034_233765035insCA	uc002vts.2	-						NGEF_uc010zmm.1_Intron|NGEF_uc010fyg.1_Intron|NGEF_uc002vtt.2_Intron	NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor						apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		tcacattcactcacacacgctc	0.010													3	3	---	---	---	---	
NGEF	25791	broad.mit.edu	37	2	233815587	233815587	+	Intron	DEL	A	-	-	rs35200250		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233815587delA	uc002vts.2	-							NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor						apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		CATGCTTCAGAAAAAAAACAT	0.423													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	236285039	236285039	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:236285039delA								SH3BP4 (320683 upstream) : AGAP1 (117697 downstream)																							taacatcaccaaaaaaaagac	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	237666685	237666686	+	IGR	DEL	CT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:237666685_237666686delCT								CXCR7 (175693 upstream) : COPS8 (327398 downstream)																							tGCTTTCCACCTCTCTCTCTTG	0.119													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	238089683	238089683	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238089683delT								COPS8 (82196 upstream) : COL6A3 (142972 downstream)																							cgcttattcattagctcgtaa	0.090													4	2	---	---	---	---	
MLPH	79083	broad.mit.edu	37	2	238398467	238398467	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238398467delA	uc002vwt.2	+						MLPH_uc002vws.2_Intron|MLPH_uc010fyt.1_Intron|MLPH_uc002vwu.2_Intron|MLPH_uc002vwv.2_Intron	NM_024101	NP_077006	Q9BV36	MELPH_HUMAN	melanophilin isoform 1								metal ion binding			ovary(1)	1		Breast(86;0.000381)|Renal(207;0.000966)|Ovarian(221;0.0695)|all_hematologic(139;0.095)|all_lung(227;0.17)|Melanoma(123;0.203)		Epithelial(121;1.17e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.02e-10)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.15e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000439)|Lung(119;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0316)		CAATTTGGCCAAAAAATTAAT	0.468													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	239942984	239942984	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:239942984delT								TWIST2 (110747 upstream) : HDAC4 (26881 downstream)																							tttcctcttatttttttttcc	0.065													4	2	---	---	---	---	
HDAC4	9759	broad.mit.edu	37	2	239982834	239982837	+	Intron	DEL	GTGA	-	-	rs77552780		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:239982834_239982837delGTGA	uc002vyk.3	-						HDAC4_uc010fyy.2_Intron	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4						B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		GTGACTGAgtgtgagtgtgtggtg	0.289													5	3	---	---	---	---	
HDAC4	9759	broad.mit.edu	37	2	240143051	240143051	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:240143051delA	uc002vyk.3	-						HDAC4_uc010fyz.1_Intron|HDAC4_uc010zoa.1_Intron|HDAC4_uc010fza.2_Intron|HDAC4_uc002vyl.1_Intron	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4						B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		AACCCTCTGGAAAAAAAAATC	0.507													4	2	---	---	---	---	
HDAC4	9759	broad.mit.edu	37	2	240200024	240200024	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:240200024delA	uc002vyk.3	-						HDAC4_uc010fyz.1_Intron|HDAC4_uc010zoa.1_Intron|HDAC4_uc010fza.2_Intron	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4						B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		GCATTTGTTTAAAAAAAAAAT	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	240395413	240395413	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:240395413delG								HDAC4 (72067 upstream) : NDUFA10 (504745 downstream)																							cataggacttgggggtcttgg	0.259													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	240478131	240478132	+	IGR	DEL	TC	-	-	rs72492250		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:240478131_240478132delTC								HDAC4 (154785 upstream) : NDUFA10 (422026 downstream)																							gttttttttttccttcaacttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	241217345	241217345	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241217345delC								OTOS (137272 upstream) : GPC1 (157770 downstream)																							gtccctgattccaggccttgg	0.000													4	2	---	---	---	---	
FARP2	9855	broad.mit.edu	37	2	242387043	242387044	+	Intron	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242387043_242387044delAC	uc002wbi.1	+						FARP2_uc010zoq.1_Intron|FARP2_uc010zor.1_Intron	NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2						axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		ACAGGGGAGGACGTGAACAAGA	0.475													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	5522089	5522089	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:5522089delA								EDEM1 (260440 upstream) : None (None downstream)																							agtgcttgttaaaacatagat	0.154													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	6106703	6106703	+	IGR	DEL	C	-	-	rs11362333		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:6106703delC								EDEM1 (845054 upstream) : GRM7 (796099 downstream)																							AATCGCCCATCCCAATGGAAA	0.418													4	2	---	---	---	---	
ATP2B2	491	broad.mit.edu	37	3	10733463	10733464	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10733463_10733464insT	uc003bvw.2	-							NM_001683	NP_001674	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 2						ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CATGTCTGCACTTAGGAGGTGC	0.470													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	24786558	24786558	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:24786558delT								THRB (250105 upstream) : RARB (429265 downstream)																							AGACATATAATTTACAAGTAT	0.194													4	2	---	---	---	---	
TOP2B	7155	broad.mit.edu	37	3	25643105	25643105	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:25643105delA	uc003cdj.2	-						TOP2B_uc011awm.1_Intron|TOP2B_uc010hff.1_Intron	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme						DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						ctctatcttcaaaaaaaaaaa	0.159													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	27847896	27847896	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:27847896delT								EOMES (83690 upstream) : CMC1 (435228 downstream)																							CAGCTCAGGGTTTTTCCACTG	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	28985875	28985875	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:28985875delA								ZCWPW2 (419245 upstream) : RBMS3 (337068 downstream)																							TCAAGGCTTTAAAAAAAACAC	0.239													4	2	---	---	---	---	
RBMS3	27303	broad.mit.edu	37	3	30013677	30013677	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30013677delT	uc003cel.2	+						RBMS3_uc003cek.2_Intron|RBMS3_uc010hfq.2_Intron|RBMS3_uc003cem.2_Intron|RBMS3_uc010hfr.2_Intron	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting							cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				CTCCTTTCTATTTTTTTTTTG	0.373													4	2	---	---	---	---	
GADL1	339896	broad.mit.edu	37	3	30828711	30828712	+	Intron	INS	-	G	G	rs143943602	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30828711_30828712insG	uc003cep.2	-							NM_207359	NP_997242	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1						carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	CCTGAATATGAGGGGAAAAAAG	0.208													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	34397468	34397468	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:34397468delT								PDCD6IP (486274 upstream) : None (None downstream)																							CTTTCTCCACTTTTTTTTTTA	0.214													4	2	---	---	---	---	
STAC	6769	broad.mit.edu	37	3	36468357	36468358	+	Intron	INS	-	CGA	CGA			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:36468357_36468358insCGA	uc003cgh.1	+						STAC_uc010hgd.1_Intron|STAC_uc011aya.1_Intron	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain						intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						TCATCACCTCTCGACATTTTGT	0.391													4	2	---	---	---	---	
DAG1	1605	broad.mit.edu	37	3	49547840	49547840	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49547840delT	uc003cxc.3	+							NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein						cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		CCTGCTTTTCTTTTTTTTTCA	0.483													9	4	---	---	---	---	
RBM6	10180	broad.mit.edu	37	3	50040862	50040863	+	Intron	INS	-	GT	GT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50040862_50040863insGT	uc003cyc.2	+						RBM6_uc011bdh.1_Intron|RBM6_uc010hlc.1_Intron|RBM6_uc003cyd.2_Intron|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6						RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		GTAGAGCCTGAGTGTGTGTGTG	0.396													4	2	---	---	---	---	
PTPRG	5793	broad.mit.edu	37	3	61557310	61557310	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:61557310delT	uc003dlb.2	+						PTPRG_uc003dlc.2_Intron|PTPRG_uc003dla.3_Intron	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		TGGTGGTGAGTTTTTTTTTGA	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	67033950	67033950	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:67033950delT								LRIG1 (483105 upstream) : KBTBD8 (14777 downstream)																							atttgtttGCTTTTTTTTTTG	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	75127166	75127166	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75127166delG								CNTN3 (556823 upstream) : FAM86D (343539 downstream)																							ggaggctacagggggctagag	0.010													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	76448749	76448749	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:76448749delA								ZNF717 (614079 upstream) : ROBO2 (640545 downstream)																							TGAGATCAGTAAAATAGTTCA	0.333													4	2	---	---	---	---	
CADM2	253559	broad.mit.edu	37	3	85678550	85678551	+	Intron	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:85678550_85678551delCA	uc003dqj.2	+						CADM2_uc003dqk.2_Intron	NM_153184	NP_694854	Q8N3J6	CADM2_HUMAN	immunoglobulin superfamily, member 4D						adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)		AGCATGCATGCACACACACACA	0.332													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	86312715	86312717	+	IGR	DEL	TCC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:86312715_86312717delTCC								CADM2 (194767 upstream) : VGLL3 (674408 downstream)																							CTTTCTTATTtcctcctcctcct	0.266													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	94971084	94971085	+	IGR	DEL	TT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:94971084_94971085delTT								LOC255025 (76005 upstream) : None (None downstream)																							ctttgtcctcttttttctctgt	0.010													4	2	---	---	---	---	
EPHA6	285220	broad.mit.edu	37	3	97184811	97184812	+	Intron	INS	-	T	T	rs72092395		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97184811_97184812insT	uc010how.1	+						EPHA6_uc011bgo.1_Intron|EPHA6_uc011bgp.1_Intron|EPHA6_uc003drs.3_Intron|EPHA6_uc003drr.3_Intron|EPHA6_uc003drt.2_Intron|EPHA6_uc010hox.1_Intron	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a							integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CTGCCCATTTGTTTTTTTTTCT	0.302													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	98443545	98443545	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:98443545delG								CPOX (131104 upstream) : ST3GAL6 (7607 downstream)																							tttcataagtgggagaaaaag	0.070													4	2	---	---	---	---	
LOC152225	152225	broad.mit.edu	37	3	101707322	101707323	+	Intron	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:101707322_101707323delCA	uc003dvr.1	+							NR_026934				Homo sapiens cDNA FLJ33269 fis, clone ASTRO2007578.												0						catgtgcacgcacacacacaca	0.198													3	3	---	---	---	---	
ZPLD1	131368	broad.mit.edu	37	3	102092748	102092749	+	Intron	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:102092748_102092749delAC	uc003dvs.1	+							NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1							integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						CTCTAGCTTTACACACACACAC	0.366													5	3	---	---	---	---	
ZPLD1	131368	broad.mit.edu	37	3	102136890	102136890	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:102136890delT	uc003dvs.1	+							NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1							integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						TTTTTCTTTCTTTTTTTTTTA	0.343													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	102240915	102240916	+	IGR	DEL	TG	-	-	rs71980726		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:102240915_102240916delTG								ZPLD1 (42230 upstream) : None (None downstream)																							GTACAAACCTtgtgtgtgtgtg	0.312													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	102317651	102317651	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:102317651delT								ZPLD1 (118966 upstream) : None (None downstream)																							aaaaaaagactttttttcatt	0.050													4	2	---	---	---	---	
LOC100302640	100302640	broad.mit.edu	37	3	106832473	106832473	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:106832473delG	uc003dwf.3	-						LOC100302640_uc011bhk.1_Intron					Homo sapiens cDNA clone IMAGE:5284861.												0						GACTTAATATGGGTGTGAGGG	0.453													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	107065485	107065485	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:107065485delG								LOC344595 (19675 upstream) : CCDC54 (30703 downstream)																							CACTTTTGGAGGGGTCAGGGA	0.358													4	2	---	---	---	---	
BBX	56987	broad.mit.edu	37	3	107466076	107466077	+	Intron	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:107466076_107466077delGT	uc010hpr.2	+						BBX_uc003dwk.3_Intron|BBX_uc003dwl.3_Intron|BBX_uc010hps.1_Intron|BBX_uc003dwm.3_Intron	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			TAACgtgtgagtgtgtgtgtgt	0.307													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	108869038	108869039	+	IGR	INS	-	A	A	rs150519958	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108869038_108869039insA								MORC1 (32045 upstream) : C3orf66 (27973 downstream)																							AAAACATAAACAAAGAAAAGTA	0.317													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	109531597	109531598	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109531597_109531598insC								FLJ25363 (317583 upstream) : None (None downstream)																							aaggaggccttcctgccgtttc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	109607548	109607548	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109607548delT								FLJ25363 (393534 upstream) : None (None downstream)																							GTgttctacctccaacctata	0.129													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	110416001	110416001	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:110416001delG								None (None upstream) : PVRL3 (374864 downstream)																							aagtgatgttggtaaattgat	0.000													4	2	---	---	---	---	
PVRL3	25945	broad.mit.edu	37	3	110804547	110804548	+	Intron	INS	-	T	T	rs77908325		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:110804547_110804548insT	uc003dxt.1	+						PVRL3_uc003dxu.1_Intron	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3 precursor						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity			upper_aerodigestive_tract(2)	2						atgtagcagtattttttttttt	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	111057549	111057549	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111057549delA								PVRL3 (145176 upstream) : CD96 (203377 downstream)																							gatggagaagaaaaaaataaT	0.174													4	2	---	---	---	---	
CCDC80	151887	broad.mit.edu	37	3	112335291	112335291	+	Intron	DEL	G	-	-	rs60392936		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:112335291delG	uc003dzf.2	-						CCDC80_uc011bhv.1_Intron|CCDC80_uc003dzg.2_Intron|CCDC80_uc003dzh.1_Intron	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor											ovary(2)	2						gaaaaaaaaagaaaagaaaaa	0.343													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	114897434	114897434	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:114897434delC								ZBTB20 (31307 upstream) : GAP43 (444717 downstream)																							tttgttattacccaccttctg	0.000													4	2	---	---	---	---	
LSAMP	4045	broad.mit.edu	37	3	115956438	115956438	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:115956438delT	uc003ebt.2	-						LSAMP_uc011bis.1_Intron	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein						cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		GTTCCATCCCTTTTATTCATT	0.229													4	2	---	---	---	---	
LSAMP	4045	broad.mit.edu	37	3	116016009	116016009	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:116016009delG	uc003ebt.2	-						LSAMP_uc011bis.1_Intron	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein						cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		AATGAATCCTGTATTTAAATT	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	116591895	116591895	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:116591895delA								LOC285194 (156010 upstream) : None (None downstream)																							tggaatgtgtaatATGAAGGA	0.224													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	117173894	117173895	+	IGR	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:117173894_117173895delAC								LOC285194 (738009 upstream) : None (None downstream)																							ATTCTGAGAAACAAAAAGTTCT	0.332													4	2	---	---	---	---	
ARHGAP31	57514	broad.mit.edu	37	3	119082054	119082055	+	Intron	DEL	GA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119082054_119082055delGA	uc003ecj.3	+							NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						CAGGGATTTTgagagagagaga	0.332													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	120218340	120218340	+	IGR	DEL	T	-	-	rs78721270		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:120218340delT								FSTL1 (48422 upstream) : NDUFB4 (96788 downstream)																							TTTTCTTTTCTTTTTTTTTAA	0.333													3	3	---	---	---	---	
CASR	846	broad.mit.edu	37	3	121916014	121916014	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121916014delT	uc003eev.3	+						CASR_uc003eew.3_Intron	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor						anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	TCCTTGGTCATTTTTTTGCCC	0.358													4	2	---	---	---	---	
HSPBAP1	79663	broad.mit.edu	37	3	122488956	122488957	+	Intron	INS	-	C	C	rs142807214	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122488956_122488957insC	uc003efu.1	-						HSPBAP1_uc003efv.1_Intron	NM_024610	NP_078886	Q96EW2	HBAP1_HUMAN	Hspb associated protein 1							cytoplasm				ovary(1)|lung(1)	2				GBM - Glioblastoma multiforme(114;0.0531)		TTATCTTTTCTTACGTTTCTGC	0.356													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	125361618	125361618	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:125361618delT								OSBPL11 (47237 upstream) : MIR548I1 (147629 downstream)																							GCTGTccaacttttttattct	0.060													4	2	---	---	---	---	
CHCHD6	84303	broad.mit.edu	37	3	126539194	126539194	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126539194delA	uc003ejf.1	+						CHCHD6_uc010hsj.1_Intron	NM_032343	NP_115719	Q9BRQ6	CHCH6_HUMAN	coiled-coil-helix-coiled-coil-helix domain												0						ccatttctagaatcacataag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	126876038	126876038	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126876038delG								PLXNA1 (119810 upstream) : TPRA1 (415870 downstream)																							GTAAAATGGTGGGGAATCTGT	0.517													4	2	---	---	---	---	
TMCC1	23023	broad.mit.edu	37	3	129512010	129512011	+	Intron	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129512010_129512011delAC	uc003emz.3	-						TMCC1_uc011blc.1_Intron|TMCC1_uc010htg.2_Intron	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1							integral to membrane				skin(1)	1						AGGCCTTCAAacacacacacac	0.317													4	2	---	---	---	---	
CPNE4	131034	broad.mit.edu	37	3	131509664	131509664	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:131509664delT	uc003eok.2	-						CPNE4_uc011blq.1_Intron|CPNE4_uc003eol.2_Intron|CPNE4_uc003eom.2_Intron	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV											upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						ctttaacaaattttgtaacct	0.104													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	135629585	135629585	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135629585delT								EPHB1 (650280 upstream) : PPP2R3A (54982 downstream)																							GCTAGCCACCTTTCAGTACTT	0.323													4	2	---	---	---	---	
STAG1	10274	broad.mit.edu	37	3	136155739	136155739	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136155739delT	uc003era.1	-						STAG1_uc003erb.1_Intron|STAG1_uc003erc.1_Intron|STAG1_uc010hua.1_Intron	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1						cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						ACACATGAACTTTAGCTTATC	0.284													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	138943798	138943799	+	IGR	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138943798_138943799delGT								BPESC1 (99795 upstream) : PISRT1 (8036 downstream)																							GTTGGTGTCAGTGTGTGTGTGT	0.252													4	3	---	---	---	---	
NMNAT3	349565	broad.mit.edu	37	3	139382809	139382809	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:139382809delT	uc003etk.2	-						NMNAT3_uc003etl.2_Intron|NMNAT3_uc010hul.2_Intron	NM_178177	NP_835471	Q96T66	NMNA3_HUMAN	nicotinamide mononucleotide adenylyltransferase						water-soluble vitamin metabolic process	cytosol|mitochondrion	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity				0						AACTACTGTGTTTTTTCCCCT	0.418													4	2	---	---	---	---	
CLSTN2	64084	broad.mit.edu	37	3	140087656	140087657	+	Intron	INS	-	AT	AT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:140087656_140087657insAT	uc003etn.2	+						CLSTN2_uc003etm.2_Intron	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor						homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						TGTGTGAAACCCTTTCCTTCCA	0.446										HNSCC(16;0.037)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	140499287	140499287	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:140499287delT								TRIM42 (79296 upstream) : SLC25A36 (161375 downstream)																							ctgtgcatacttttttccttg	0.000													4	2	---	---	---	---	
SPSB4	92369	broad.mit.edu	37	3	140783203	140783203	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:140783203delG	uc003ett.2	+						SPSB4_uc010hum.2_5'Flank	NM_080862	NP_543138	Q96A44	SPSB4_HUMAN	splA/ryanodine receptor domain and SOCS box						intracellular signal transduction	cytoplasm	protein binding				0						gatatgaaaaggagtaacttt	0.144													4	2	---	---	---	---	
ZBTB38	253461	broad.mit.edu	37	3	141096069	141096070	+	Intron	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141096069_141096070insC	uc003etw.2	+							NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38						positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CAAAGACTCAGCCCCCCCATCC	0.554													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	141195340	141195340	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141195340delG								ZBTB38 (26715 upstream) : RASA2 (10586 downstream)																							aaaaaaaaaagaaaaagaaaa	0.000													4	2	---	---	---	---	
TFDP2	7029	broad.mit.edu	37	3	141672056	141672056	+	Intron	DEL	A	-	-	rs140575104		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141672056delA	uc003eun.3	-						TFDP2_uc003euk.3_Intron|TFDP2_uc010hur.2_Intron|TFDP2_uc003eul.3_Intron|TFDP2_uc011bnf.1_Intron|TFDP2_uc011bng.1_Intron|TFDP2_uc003eum.3_Intron	NM_006286	NP_006277	Q14188	TFDP2_HUMAN	transcription factor Dp-2 (E2F dimerization						cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1						TAAGAGCAGGAAAAAAAAAAT	0.373													4	2	---	---	---	---	
SLC9A9	285195	broad.mit.edu	37	3	143482151	143482151	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:143482151delT	uc003evn.2	-						SLC9A9_uc011bnk.1_Intron	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen						regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						GTTCACAGCCTTAGAAATTTA	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	145772609	145772609	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:145772609delA								None (None upstream) : PLOD2 (14619 downstream)																							ttcttcacagaaaaaaaaaag	0.000													4	4	---	---	---	---	
PLOD2	5352	broad.mit.edu	37	3	145809894	145809895	+	Intron	INS	-	A	A	rs145901556	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:145809894_145809895insA	uc003evs.1	-						PLOD2_uc011bnm.1_Intron|PLOD2_uc003evr.1_Intron	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase						protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	CTAGAAATGTCAAAAAAAAAGT	0.272													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	146988720	146988720	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:146988720delT								PLSCR5 (664717 upstream) : ZIC4 (115117 downstream)																							ttctatcagataaatttaaca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	147215052	147215052	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:147215052delA								ZIC1 (80548 upstream) : None (None downstream)																							GATTTGAAGGAATTAAATTAA	0.403													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	147363958	147363958	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:147363958delT								ZIC1 (229454 upstream) : None (None downstream)																							ACTGGATCCCTTTACTGTCAT	0.498													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	148113672	148113673	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148113672_148113673insA								ZIC1 (979168 upstream) : AGTR1 (301985 downstream)																							TTTCTATTTACAAAAAAAAGCA	0.173													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	148527750	148527750	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148527750delA								AGTR1 (66962 upstream) : CPB1 (17838 downstream)																							AAAGAGAGGTAAGAAATAGTA	0.473													4	2	---	---	---	---	
HLTF	6596	broad.mit.edu	37	3	148758223	148758223	+	Intron	DEL	A	-	-	rs66482739		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148758223delA	uc003ewq.1	-						HLTF_uc003ewr.1_Intron|HLTF_uc003ews.1_Intron|HLTF_uc010hve.1_Intron	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor						chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			AAGCAAGTTTAAAAAAAAAAT	0.279													4	2	---	---	---	---	
HPS3	84343	broad.mit.edu	37	3	148856677	148856677	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148856677delG	uc003ewu.1	+						HPS3_uc003ewt.1_Intron|HPS3_uc011bnq.1_Intron	NM_032383	NP_115759	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3 protein							cytoplasm				ovary(5)|large_intestine(1)	6			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			gtgaggatgtggggaaacagg	0.000									Hermansky-Pudlak_syndrome				4	2	---	---	---	---	
MED12L	116931	broad.mit.edu	37	3	151034106	151034107	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151034106_151034107insA	uc003eyp.2	+						MED12L_uc011bnz.1_Intron|GPR87_uc003eyt.2_Intron	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AAATGTGGTTTAAAAAAAAATG	0.312													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	152198171	152198172	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:152198171_152198172delTG								MBNL1 (14603 upstream) : P2RY1 (354564 downstream)																							ttagatattttgtgtgtgtgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	152258707	152258707	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:152258707delA								MBNL1 (75139 upstream) : P2RY1 (294029 downstream)																							taaacactagaaaatacattg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	153264767	153264767	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:153264767delT								C3orf79 (44284 upstream) : SGEF (574382 downstream)																							ACACACTGTCTTATTATTTCG	0.313													4	2	---	---	---	---	
SGEF	26084	broad.mit.edu	37	3	153844555	153844556	+	Intron	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:153844555_153844556insC	uc011bog.1	+						SGEF_uc011boh.1_Intron	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine						regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			acgttgactttcCCTAGTTCTT	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	155579503	155579503	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155579503delT								SLC33A1 (7336 upstream) : GMPS (8822 downstream)																							ttgtttcccattttttgtatg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	157580381	157580382	+	IGR	INS	-	AATC	AATC	rs143237466	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:157580381_157580382insAATC								C3orf55 (261362 upstream) : SHOX2 (233419 downstream)																							AGTACACTCAAaatcaatcaat	0.297													4	4	---	---	---	---	
GFM1	85476	broad.mit.edu	37	3	158391746	158391746	+	Intron	DEL	T	-	-	rs11340869		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:158391746delT	uc003fce.2	+						GFM1_uc003fcd.2_Intron|GFM1_uc003fcf.2_Intron|GFM1_uc003fcg.2_Intron|LXN_uc003fch.2_5'Flank|LXN_uc011bov.1_5'Flank	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor						mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			TCTGATTGACTTTGCCTTTAA	0.393													4	2	---	---	---	---	
NMD3	51068	broad.mit.edu	37	3	160943180	160943181	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160943180_160943181insT	uc003feb.1	+						NMD3_uc003fec.2_Intron|NMD3_uc003fed.1_Intron	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog						protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			TTATTATGAGGTTTTTTTTTCT	0.272													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	163077438	163077439	+	IGR	INS	-	A	A	rs145960034	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:163077438_163077439insA								None (None upstream) : MIR1263 (811820 downstream)																							aaaaaagacttaaaaaaaaagg	0.064													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	164274140	164274140	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164274140delT								MIR720 (214902 upstream) : SI (422547 downstream)																							CTAACAAGACTTTTTTTAGAG	0.289													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	165729601	165729601	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165729601delT								BCHE (174348 upstream) : None (None downstream)																							GAACATTCTATTTTTGAAGCC	0.383													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	169432358	169432358	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169432358delT								MECOM (50795 upstream) : TERC (50040 downstream)																							attttcttagttttttttccc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	169444320	169444320	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169444320delT								MECOM (62757 upstream) : TERC (38078 downstream)																							agtatcatgctttttggttac	0.000													4	2	---	---	---	---	
TNIK	23043	broad.mit.edu	37	3	171033985	171033985	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171033985delT	uc003fhh.2	-						TNIK_uc003fhi.2_Intron|TNIK_uc003fhj.2_Intron|TNIK_uc003fhk.2_Intron|TNIK_uc003fhl.2_Intron|TNIK_uc003fhm.2_Intron|TNIK_uc003fhn.2_Intron|TNIK_uc003fho.2_Intron	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1						actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			ctgcttcccattacattccca	0.139													4	2	---	---	---	---	
PLD1	5337	broad.mit.edu	37	3	171456094	171456094	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171456094delA	uc003fhs.2	-						PLD1_uc003fht.2_Intron	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a						cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	aaaacaagagaaaaaaaaaag	0.284													4	2	---	---	---	---	
FNDC3B	64778	broad.mit.edu	37	3	171946137	171946138	+	Intron	DEL	CC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171946137_171946138delCC	uc003fhy.2	+						FNDC3B_uc003fhz.3_Intron|FNDC3B_uc003fia.2_Intron	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B							endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		GCATTTCATTCCATTGAATAGA	0.351													4	2	---	---	---	---	
NAALADL2	254827	broad.mit.edu	37	3	175053583	175053584	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:175053583_175053584insA	uc003fit.2	+						NAALADL2_uc003fiu.1_Intron|NAALADL2_uc010hwy.1_Intron|NAALADL2_uc010hwz.1_Intron	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2						proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		CAGTGAGAATTAAAAAAATTGA	0.277													4	2	---	---	---	---	
NAALADL2	254827	broad.mit.edu	37	3	175111674	175111674	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:175111674delT	uc003fit.2	+						NAALADL2_uc003fiu.1_Intron|NAALADL2_uc010hwy.1_Intron|NAALADL2_uc010hwz.1_Intron	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2						proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		ccagtccccctttttggagat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	177838049	177838049	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:177838049delT								TBL1XR1 (923001 upstream) : KCNMB2 (416175 downstream)																							TTAGAAATCATTTTTTTTTCC	0.393													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	179197387	179197388	+	IGR	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179197387_179197388delAC								GNB4 (28016 upstream) : ACTL6A (83320 downstream)																							AAACACATGTACACACACACAC	0.381													4	2	---	---	---	---	
USP13	8975	broad.mit.edu	37	3	179506683	179506683	+	3'UTR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179506683delT	uc003fkh.2	+	21						NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13						ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			AGAAAGCAGATTTTTTTTTTC	0.388													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	180848788	180848788	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180848788delA								DNAJC19 (141258 upstream) : SOX2OT (432721 downstream)																							tcacaagaggaaaaaaaaata	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	181689606	181689606	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:181689606delT	uc003fky.2	+											Homo sapiens cDNA clone IMAGE:5296886.																		TTTGTTTTTGTTTTTTTTTGA	0.453													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	182456371	182456371	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:182456371delA								SOX2OT (997368 upstream) : ATP11B (54920 downstream)																							aactattatgaaaaAAAAGCA	0.070													4	2	---	---	---	---	
YEATS2	55689	broad.mit.edu	37	3	183521660	183521661	+	Intron	DEL	AA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183521660_183521661delAA	uc003fly.2	+							NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2						histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TTTTTTCTTTAAAAAAAAAAAT	0.327													4	2	---	---	---	---	
PARL	55486	broad.mit.edu	37	3	183547779	183547780	+	Intron	INS	-	CGCAC	CGCAC	rs71629994		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183547779_183547780insCGCAC	uc003fmd.2	-						PARL_uc003fme.2_Intron	NM_018622	NP_061092	Q9H300	PARL_HUMAN	presenilin associated, rhomboid-like isoform 1						proteolysis	integral to membrane|mitochondrial inner membrane|nucleus	serine-type endopeptidase activity				0	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.21e-41)|Epithelial(37;1.34e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			agttttcccatcgcagacatga	0.015													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	186478747	186478748	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186478747_186478748insT								KNG1 (17006 upstream) : EIF4A2 (22613 downstream)																							TGGAGGTGttcttttttttttt	0.074													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	187104535	187104535	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:187104535delA								RTP4 (15168 upstream) : SST (282161 downstream)																							taacacaatgaaaaaaaaaat	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	187219848	187219849	+	IGR	INS	-	AA	AA	rs113831280		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:187219848_187219849insAA								RTP4 (130481 upstream) : SST (166847 downstream)																							gaccttgtctcaaaaaaaaaaa	0.163													3	3	---	---	---	---	
LPP	4026	broad.mit.edu	37	3	188142228	188142228	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188142228delT	uc003frs.1	+						LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Intron|LPP_uc003frt.2_Intron	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation						cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		ctatatgggcttttttttggt	0.000			T	HMGA2|MLL|C12orf9	lipoma|leukemia								4	2	---	---	---	---	
LPP	4026	broad.mit.edu	37	3	188242760	188242760	+	Intron	DEL	T	-	-	rs66657526		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188242760delT	uc003frs.1	+						LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Intron|LPP_uc003frt.2_Intron	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation						cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		tttctttctcttttttttttt	0.035			T	HMGA2|MLL|C12orf9	lipoma|leukemia								5	3	---	---	---	---	
LPP	4026	broad.mit.edu	37	3	188296819	188296819	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188296819delA	uc003frs.1	+						LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Intron|LPP_uc003frt.2_Intron|LPP_uc011bsj.1_Intron	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation						cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		ATCACTTACCAAAAAAAAAGG	0.274			T	HMGA2|MLL|C12orf9	lipoma|leukemia								3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	189633695	189633695	+	IGR	DEL	A	-	-	rs10710030		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:189633695delA								TP63 (18627 upstream) : LEPREL1 (40824 downstream)																							GAAACCAATGAAAAAAATATA	0.184													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	190082618	190082618	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190082618delT								CLDN1 (42403 upstream) : CLDN16 (23223 downstream)																							gagcgttgtcttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	191538222	191538222	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:191538222delT								PYDC2 (358979 upstream) : FGF12 (321462 downstream)																							CTTGTATTTGTTTTTTTTTTA	0.373													2	4	---	---	---	---	
ATP13A5	344905	broad.mit.edu	37	3	193048072	193048072	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193048072delT	uc011bsq.1	-							NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5						ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		CCCATTTTCctgctttctcag	0.289													4	2	---	---	---	---	
PIGG	54872	broad.mit.edu	37	4	504616	504616	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:504616delC	uc003gak.3	+						PIGG_uc003gaj.3_Intron|PIGG_uc011bux.1_Intron|PIGG_uc010ibf.2_Intron|PIGG_uc003gal.3_Intron|PIGG_uc003gai.2_Intron|PIGG_uc011buw.1_Intron|PIGG_uc003gam.2_Intron|PIGG_uc003gan.2_Intron	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,						C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						ccaccttcctcttccccagcc	0.000													4	2	---	---	---	---	
GAK	2580	broad.mit.edu	37	4	862872	862873	+	Intron	DEL	GC	-	-	rs111343633		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:862872_862873delGC	uc003gbm.3	-						GAK_uc003gbn.3_Intron|GAK_uc010ibk.1_Intron|GAK_uc010ibi.2_5'Flank|GAK_uc010ibj.2_Intron|GAK_uc003gbl.3_Intron	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase						cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		acacacgaatgcacacacagca	0.000													4	4	---	---	---	---	
FAM193A	8603	broad.mit.edu	37	4	2617985	2617985	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2617985delT	uc010ick.2	+							NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603											ovary(3)	3						ctctttgttgttactaatcct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	3999335	3999336	+	IGR	INS	-	TGA	TGA	rs58448456		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3999335_3999336insTGA								LOC348926 (42187 upstream) : OTOP1 (191194 downstream)																							CTTTTTATTTTtgatgatgatg	0.312													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	4548486	4548486	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:4548486delA	uc003gid.2	+											Homo sapiens, clone IMAGE:5204729, mRNA.																		ACAGATGTGCAAAAAAAAGCG	0.398													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	8314886	8314887	+	IGR	DEL	AC	-	-	rs147536100	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8314886_8314887delAC								HTRA3 (6056 upstream) : ACOX3 (53123 downstream)																							aatggtggttaccatgggatgg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	10276151	10276152	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:10276151_10276152insT								WDR1 (157578 upstream) : ZNF518B (165353 downstream)																							CTCATGACCCCTTCCCTTCCTC	0.421													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	10283308	10283308	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:10283308delT								WDR1 (164735 upstream) : ZNF518B (158197 downstream)																							ACATCTGGTCTTTTTTGGACG	0.433													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	11592191	11592191	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:11592191delA								HS3ST1 (161654 upstream) : None (None downstream)																							ACTCTTATGGAAAAAAAAAAT	0.408													4	2	---	---	---	---	
RAB28	9364	broad.mit.edu	37	4	13416693	13416693	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:13416693delA	uc003gmu.2	-						RAB28_uc003gmt.2_Intron|RAB28_uc011bwz.1_Intron|RAB28_uc003gmv.2_Intron	NM_001017979	NP_001017979	P51157	RAB28_HUMAN	RAB28, member RAS oncogene family isoform 1						small GTPase mediated signal transduction	plasma membrane	GDP binding|GTP binding|GTPase activity			ovary(1)|skin(1)	2						tcagtaagataaaaataagat	0.065													4	2	---	---	---	---	
LDB2	9079	broad.mit.edu	37	4	16650155	16650155	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:16650155delG	uc003goz.2	-						LDB2_uc003gpa.2_Intron|LDB2_uc003gpb.2_Intron|LDB2_uc011bxh.1_Intron|LDB2_uc010iee.2_Intron|LDB2_uc011bxi.1_Intron	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a								LIM domain binding|transcription cofactor activity				0						CACATCATGTGGTCATTCCTC	0.398													4	2	---	---	---	---	
LDB2	9079	broad.mit.edu	37	4	16745327	16745327	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:16745327delA	uc003goz.2	-						LDB2_uc003gpa.2_Intron|LDB2_uc003gpb.2_Intron|LDB2_uc011bxh.1_Intron|LDB2_uc010iee.2_Intron	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a								LIM domain binding|transcription cofactor activity				0						taatagccagaaaaaaaaacc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	22832338	22832338	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:22832338delC								GBA3 (11147 upstream) : PPARGC1A (961307 downstream)																							CACTCACTCACCCACTCactt	0.060													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	31860866	31860867	+	IGR	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:31860866_31860867delAC								PCDH7 (712445 upstream) : None (None downstream)																							aaacacacatacacacacacac	0.000													4	2	---	---	---	---	
KIAA1239	57495	broad.mit.edu	37	4	37378924	37378924	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:37378924delT	uc011bxz.1	+							NM_001144990	NP_001138462	Q9ULI1	K1239_HUMAN	hypothetical protein LOC57495												0						GAGAAGATAATTTTTTTTGAA	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	37760247	37760247	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:37760247delA								RELL1 (72248 upstream) : PGM2 (68035 downstream)																							TTGCAAAGGGAAAAAAAATAC	0.388													4	2	---	---	---	---	
TBC1D1	23216	broad.mit.edu	37	4	38131953	38131954	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38131953_38131954insT	uc003gtb.2	+						TBC1D1_uc011byd.1_Intron|TBC1D1_uc010ifd.2_Intron|TBC1D1_uc003gtd.2_Intron	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,							nucleus	Rab GTPase activator activity			ovary(1)	1						GTATTTGGTGATTTTTCTTTTA	0.243													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	38508862	38508862	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38508862delA								TBC1D1 (368069 upstream) : FLJ13197 (105460 downstream)																							tataaaagatAAAACATTACT	0.025													4	2	---	---	---	---	
N4BP2	55728	broad.mit.edu	37	4	40105583	40105583	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40105583delT	uc003guy.3	+						N4BP2_uc010ifq.2_Intron|N4BP2_uc010ifr.2_Intron	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2							cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						ATGCTAGttcttttttttttg	0.174													6	3	---	---	---	---	
RHOH	399	broad.mit.edu	37	4	40244751	40244754	+	Intron	DEL	AAGA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40244751_40244754delAAGA	uc003guz.2	+							NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor						negative regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|T cell differentiation	cytosol|mitochondrion|plasma membrane	GTP binding|GTPase inhibitor activity|kinase inhibitor activity|Rho GTPase binding			ovary(1)|lung(1)	2						CAAAAAAGGCAAGAAAGAAAGAAA	0.461													4	2	---	---	---	---	
APBB2	323	broad.mit.edu	37	4	40972487	40972487	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40972487delT	uc003gvl.2	-						APBB2_uc003gvm.2_Intron|APBB2_uc003gvn.2_Intron|APBB2_uc011byt.1_Intron	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,						cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						CCACTCCTCCTTTTTTTTTGA	0.249													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	44861180	44861180	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:44861180delT								GNPDA2 (132568 upstream) : None (None downstream)																							aactctgccgtttTTTTGCAC	0.269													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	45559373	45559373	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:45559373delT								GNPDA2 (830761 upstream) : GABRG1 (478416 downstream)																							TTCCCAGTCATTTTTTTATTT	0.318													4	2	---	---	---	---	
GABRB1	2560	broad.mit.edu	37	4	47213669	47213669	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:47213669delA	uc003gxh.2	+						GABRB1_uc011bze.1_Intron	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta						synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	tttgtggcttaaataacacac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	49657363	49657364	+	IGR	INS	-	G	G	rs4290873		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49657363_49657364insG								CWH43 (593270 upstream) : None (None downstream)																							taaccggagatgaatggaatgg	0.000													4	2	---	---	---	---	
SCFD2	152579	broad.mit.edu	37	4	53761344	53761344	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:53761344delT	uc003gzu.2	-						SCFD2_uc010igm.2_Intron	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2						protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			ttGATCCACCtttttttttta	0.114													2	4	---	---	---	---	
PDGFRA	5156	broad.mit.edu	37	4	54259242	54259242	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:54259242delT	uc003haa.2	+						FIP1L1_uc003gzx.3_Intron|FIP1L1_uc011bzt.1_Intron|FIP1L1_uc003gzy.2_Intron|FIP1L1_uc011bzu.1_Intron|FIP1L1_uc003gzz.2_Intron|FIP1L1_uc003hab.2_Intron|FIP1L1_uc003hac.2_Intron	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha						cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	AGGACATTGATTTTAAACTAA	0.383			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			4	2	---	---	---	---	
KDR	3791	broad.mit.edu	37	4	55988330	55988330	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:55988330delT	uc003has.2	-						KDR_uc003hat.1_Intron|KDR_uc011bzx.1_Intron	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor						angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	CTATAAGGGATAAGAACCAGA	0.388			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	59925817	59925817	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:59925817delG								None (None upstream) : None (None downstream)																							TCACAACCCTGGGTTtgacac	0.179													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	64077312	64077312	+	IGR	DEL	T	-	-	rs34430692		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:64077312delT								None (None upstream) : None (None downstream)																							tcacattacatttttttttaa	0.015													3	4	---	---	---	---	
EPHA5	2044	broad.mit.edu	37	4	66436152	66436152	+	Intron	DEL	T	-	-	rs76276250		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:66436152delT	uc003hcy.2	-						EPHA5_uc003hcx.2_Intron|EPHA5_uc003hcz.2_Intron|EPHA5_uc011cah.1_Intron|EPHA5_uc011cai.1_Intron|EPHA5_uc003hda.2_Intron	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor						cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						ATGGCCTTGGTTTTTTTTTTT	0.368										TSP Lung(17;0.13)			2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	67744627	67744628	+	IGR	DEL	TC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:67744627_67744628delTC								MIR1269 (601981 upstream) : CENPC1 (593361 downstream)																							tttctctctttctctctctctc	0.337													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	70439281	70439281	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70439281delT								UGT2B4 (47549 upstream) : UGT2A1 (14855 downstream)																							TCTGATTTTATTTTTTTTCAA	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	72478597	72478597	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:72478597delT								SLC4A4 (40794 upstream) : GC (128816 downstream)																							GATGAAAGAGTTTTTTTTAAT	0.234													4	2	---	---	---	---	
NPFFR2	10886	broad.mit.edu	37	4	72961445	72961445	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:72961445delT	uc003hgg.2	+						NPFFR2_uc010iig.1_Intron|NPFFR2_uc003hgi.2_Intron|NPFFR2_uc003hgh.2_Intron	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1						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)			GACagttcactttctgtgcag	0.050													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	73917521	73917521	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:73917521delA								ADAMTS3 (483005 upstream) : COX18 (2895 downstream)																							ggggactctgaagagccctga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	75556251	75556251	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:75556251delG								AREG (75620 upstream) : BTC (115197 downstream)																							AACAAAACGTGGCACTCTGTA	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	76492075	76492075	+	IGR	DEL	A	-	-	rs11290639		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:76492075delA								C4orf26 (2148 upstream) : CDKL2 (9630 downstream)																							tctaatcatcaaaaaaaaact	0.090													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	77352701	77352701	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:77352701delA								CCDC158 (24243 upstream) : SHROOM3 (3552 downstream)																							AAGCTTCTCTAAACTTTCTCC	0.294													4	2	---	---	---	---	
CNOT6L	246175	broad.mit.edu	37	4	78712571	78712571	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:78712571delA	uc011ccd.1	-						CNOT6L_uc003hks.2_Intron|CNOT6L_uc011cce.1_Intron	NM_144571	NP_653172	Q96LI5	CNO6L_HUMAN	CCR4-NOT transcription complex, subunit 6-like						nuclear-transcribed mRNA poly(A) tail shortening	cytosol	exonuclease activity|protein binding			large_intestine(1)	1						GTGTACGGTTAAAAAAAAAAG	0.279													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	80519945	80519946	+	IGR	INS	-	AC	AC			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:80519945_80519946insAC								GK2 (190573 upstream) : GDEP (228679 downstream)																							CTTGGTGTGAAACACACACACA	0.475													4	2	---	---	---	---	
RASGEF1B	153020	broad.mit.edu	37	4	82382180	82382184	+	Intron	DEL	CTGCA	-	-	rs34139591		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82382180_82382184delCTGCA	uc003hmi.1	-						RASGEF1B_uc003hmj.1_Intron|RASGEF1B_uc010ijq.1_Intron|RASGEF1B_uc003hmk.2_Intron	NM_152545	NP_689758	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						CACAGATGGTCTGCACACACCCTTA	0.405													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	82802574	82802574	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82802574delT								RASGEF1B (409513 upstream) : HNRNPD (471893 downstream)																							TGCAGCTTTGTTTTTTTTCTA	0.209													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	84957832	84957832	+	Intron	DEL	T	-	-	rs151026165	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:84957832delT	uc010ikd.1	-						uc003hoz.1_Intron					Homo sapiens cDNA FLJ37966 fis, clone CTONG2009871.																		tcataagccctttctctgtag	0.249													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	85439174	85439174	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85439174delA								NKX6-1 (19787 upstream) : CDS1 (64883 downstream)																							accatccaggaaaaaaatgac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	90576631	90576632	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:90576631_90576632insA								GPRIN3 (347470 upstream) : SNCA (68619 downstream)																							agaagaagaagaaaaaaaaaca	0.228													4	2	---	---	---	---	
BMPR1B	658	broad.mit.edu	37	4	95866017	95866017	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:95866017delT	uc003htm.3	+							NM_001203	NP_001194	O00238	BMR1B_HUMAN	bone morphogenetic protein receptor, type IB						BMP signaling pathway|cartilage condensation|eye development|limb morphogenesis|ovarian cumulus expansion|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	receptor complex	ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta receptor activity			lung(4)|skin(2)|stomach(1)|breast(1)	8		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.51e-07)		AGATTCCAGCTTTTTTCCGTG	0.368													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	96088447	96088447	+	RNA	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:96088447delC	uc003hto.2	-	1		c.304delG								Homo sapiens cDNA FLJ12425 fis, clone MAMMA1003104.																		ATTCTTTAATCCCCACCTGCT	0.383													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	96494449	96494450	+	IGR	INS	-	AT	AT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:96494449_96494450insAT								UNC5C (24287 upstream) : PDHA2 (266789 downstream)																							gatagttgtcaatatttggtgt	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	96687798	96687798	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:96687798delT								UNC5C (217636 upstream) : PDHA2 (73441 downstream)																							gctgaatggataaaaaacaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	97171804	97171804	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:97171804delA								PDHA2 (409180 upstream) : None (None downstream)																							TAACCTTGTTATTTTTGTGTA	0.274													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	97171810	97171810	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:97171810delG								PDHA2 (409186 upstream) : None (None downstream)																							TGTTATTTTTGTGTACCTGTG	0.269													4	2	---	---	---	---	
C4orf37	285555	broad.mit.edu	37	4	98966373	98966373	+	Intron	DEL	A	-	-	rs59284016		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:98966373delA	uc003htt.1	-							NM_174952	NP_777612	Q8N412	CD037_HUMAN	hypothetical protein LOC285555												0				OV - Ovarian serous cystadenocarcinoma(123;2.27e-08)		CATGCTCATCAGCTTATGGCT	0.502													3	4	---	---	---	---	
PPP3CA	5530	broad.mit.edu	37	4	102058875	102058876	+	Intron	INS	-	AT	AT	rs146223285		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:102058875_102058876insAT	uc011cen.1	-						PPP3CA_uc003hvu.2_Intron|PPP3CA_uc010ilj.2_Intron|PPP3CA_uc003hvt.2_Intron|PPP3CA_uc003hvs.2_Intron|PPP3CA_uc010ilk.2_Intron	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha						protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)		ACAGGATCATCATCCTACATTA	0.401													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	103323867	103323876	+	IGR	DEL	TTTTGTTTTG	-	-	rs112754360		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:103323867_103323876delTTTTGTTTTG								SLC39A8 (57212 upstream) : NFKB1 (98610 downstream)																							CTCTCTCTGTttttgttttgttttgttttg	0.138													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	104125076	104125076	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104125076delT								CENPE (5510 upstream) : TACR3 (385549 downstream)																							TTTTTGTTAATTTTTTTTTTT	0.318													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	107790137	107790138	+	IGR	DEL	GA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:107790137_107790138delGA								AIMP1 (519758 upstream) : DKK2 (52822 downstream)																							GGTACGAATGGAGAGAGAGAGT	0.431													8	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	111647912	111647913	+	IGR	INS	-	TGTA	TGTA	rs150548213	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:111647912_111647913insTGTA								PITX2 (84795 upstream) : MIR297 (133825 downstream)																							GTGGTTAATTGTGTAGTTAACC	0.351													4	2	---	---	---	---	
C4orf32	132720	broad.mit.edu	37	4	113065732	113065732	+	5'Flank	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:113065732delG	uc003iah.2	+							NM_152400	NP_689613	Q8N8J7	CD032_HUMAN	chromosome 4 open reading frame 32							integral to membrane					0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.00198)		GAGTGTAACTGGGTGCATGTG	0.458													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	117834416	117834416	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:117834416delT								MIR1973 (613492 upstream) : TRAM1L1 (170300 downstream)																							TCATAAAACCTGATGTGTAAT	0.264													4	2	---	---	---	---	
CEP170L	645455	broad.mit.edu	37	4	119449793	119449794	+	Intron	DEL	CA	-	-	rs149489409		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:119449793_119449794delCA	uc003icb.2	+							NR_003135				RecName: Full=Cep170-like protein;												0						GAGATAACCTCAGTGACAGGGA	0.262													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	126642255	126642255	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126642255delG								MIR2054 (213793 upstream) : None (None downstream)																							ACAGAAGTTTGGGGGTAAAGA	0.348													4	2	---	---	---	---	
LARP1B	55132	broad.mit.edu	37	4	129084437	129084437	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129084437delT	uc003iga.2	+						LARP1B_uc003igc.2_Intron|LARP1B_uc003igb.1_Intron	NM_018078	NP_060548	Q659C4	LAR1B_HUMAN	La ribonucleoprotein domain family member 2								RNA binding				0						catggtttcatttaacctgtt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	131027244	131027245	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:131027244_131027245insT								C4orf33 (993402 upstream) : None (None downstream)																							aagtttcttagtttgatgtaat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	132170849	132170850	+	IGR	DEL	AG	-	-	rs150537040		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:132170849_132170850delAG								None (None upstream) : None (None downstream)																							GCTATTAATTAGAGTTTTAGAT	0.243													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	133753263	133753263	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:133753263delA								None (None upstream) : PCDH10 (317207 downstream)																							TCTGAACTTTAAAAAAAAAAT	0.254													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	135352972	135352973	+	IGR	INS	-	C	C	rs148625477		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:135352972_135352973insC								PABPC4L (230069 upstream) : None (None downstream)																							aaacaaaaaaaaaaacaaaatt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	137222261	137222261	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:137222261delA								None (None upstream) : None (None downstream)																							TTCTGGAATGAAATAATTACA	0.269													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	137285303	137285304	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:137285303_137285304insT								None (None upstream) : None (None downstream)																							GTCATGTTTTCTTTAACTCGTT	0.248													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	137330120	137330120	+	IGR	DEL	A	-	-	rs147154336		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:137330120delA								None (None upstream) : None (None downstream)																							AACCTGAGAGAAAAAAAAAAA	0.353													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	139614309	139614309	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:139614309delC								SLC7A11 (450806 upstream) : CCRN4L (322634 downstream)																							ccatccccatccccccttggt	0.000													4	2	---	---	---	---	
RNF150	57484	broad.mit.edu	37	4	141908985	141908985	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:141908985delA	uc003iio.1	-						RNF150_uc010iok.1_Intron|RNF150_uc003iip.1_Intron	NM_020724	NP_065775	Q9ULK6	RN150_HUMAN	ring finger protein 150 precursor							integral to membrane	zinc ion binding			ovary(1)	1	all_hematologic(180;0.162)					caacctacagaatgggagaaa	0.000													4	2	---	---	---	---	
INPP4B	8821	broad.mit.edu	37	4	143495332	143495333	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:143495332_143495333insT	uc003iix.3	-						INPP4B_uc003iiw.3_Intron	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,						signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					ATATCCAGCTGTTTCCAGCTAA	0.396													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	144588693	144588693	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:144588693delT								LOC441046 (99380 upstream) : GYPE (203327 downstream)																							AGGAAACTCATTTTTTTTTCT	0.363													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	147461231	147461231	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:147461231delT								SLC10A7 (18108 upstream) : POU4F2 (98814 downstream)																							gatcttgttcttttttatggc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	147469370	147469375	+	IGR	DEL	GAGTTT	-	-	rs3059768		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:147469370_147469375delGAGTTT								SLC10A7 (26247 upstream) : POU4F2 (90670 downstream)																							aaggggcatagagtttgatgaaggag	0.000													4	2	---	---	---	---	
TTC29	83894	broad.mit.edu	37	4	147793387	147793388	+	Intron	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:147793387_147793388delCA	uc003ikw.3	-						TTC29_uc010ipc.2_Intron|TTC29_uc003ikx.3_Intron|TTC29_uc010ipd.1_Intron	NM_031956	NP_114162	Q8NA56	TTC29_HUMAN	tetratricopeptide repeat domain 29								binding				0	all_hematologic(180;0.151)					accacatgtgcacacacacaca	0.000													4	2	---	---	---	---	
ARHGAP10	79658	broad.mit.edu	37	4	148668946	148668946	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:148668946delA	uc003ilf.2	+						ARHGAP10_uc003ile.1_Intron	NM_024605	NP_078881	A1A4S6	RHG10_HUMAN	Rho GTPase activating protein 10						apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)		GAAGCAAAAGAAAAAAAAAAG	0.358													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	156188747	156188747	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:156188747delA								NPY2R (50521 upstream) : MAP9 (75067 downstream)																							CTCCTAAGAGAAAAAAAATGT	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	157249813	157249813	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:157249813delA								CTSO (374765 upstream) : PDGFC (432951 downstream)																							CCTGCTAAGGAAAGCAATGAC	0.214													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	160138218	160138218	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160138218delT								C4orf45 (114113 upstream) : RAPGEF2 (50780 downstream)																							GCTTGCAAGGTTTTTTTTAGT	0.388													6	3	---	---	---	---	
RAPGEF2	9693	broad.mit.edu	37	4	160275198	160275198	+	Frame_Shift_Del	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160275198delG	uc003iqg.3	+	22	4478	c.4168delG	c.(4168-4170)GCAfs	p.A1390fs		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1390					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GGGGCTCATTGGTAAGTTTTA	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	160946163	160946163	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160946163delT								RAPGEF2 (664864 upstream) : None (None downstream)																							ttgttttctgttttttttttt	0.000													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	162058679	162058680	+	IGR	DEL	CT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:162058679_162058680delCT								None (None upstream) : FSTL5 (246371 downstream)																							agaaatcttcctcaggacagct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	163975104	163975104	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:163975104delA								FSTL5 (889918 upstream) : NAF1 (72756 downstream)																							aatttaatgcaaaaaaaaaaa	0.060													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	165580897	165580897	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:165580897delA								MARCH1 (275695 upstream) : TRIM61 (294703 downstream)																							gtaagaagagaaaaaaaagca	0.085													4	2	---	---	---	---	
SPOCK3	50859	broad.mit.edu	37	4	167849236	167849236	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:167849236delG	uc003iri.1	-						SPOCK3_uc011cjp.1_Intron|SPOCK3_uc011cjq.1_Intron|SPOCK3_uc011cjr.1_Intron|SPOCK3_uc003irj.1_Intron|SPOCK3_uc011cjs.1_Intron|SPOCK3_uc011cjt.1_Intron|SPOCK3_uc011cju.1_Intron|SPOCK3_uc011cjv.1_Intron|SPOCK3_uc003irk.3_Intron|SPOCK3_uc011cjw.1_Intron	NM_016950	NP_058646	Q9BQ16	TICN3_HUMAN	testican 3 isoform 2						signal transduction	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase inhibitor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		accaaaagctggggataatgt	0.000													4	2	---	---	---	---	
PALLD	23022	broad.mit.edu	37	4	169494208	169494208	+	Intron	DEL	C	-	-	rs5863943		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169494208delC	uc011cjx.1	+						PALLD_uc003iru.2_Intron	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2						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)		tcatctaccactcttctcccc	0.000									Pancreatic_Cancer_Familial_Clustering_of				6	4	---	---	---	---	
C4orf27	54969	broad.mit.edu	37	4	170671465	170671465	+	Intron	DEL	A	-	-	rs71871415		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:170671465delA	uc003isl.3	-							NM_017867	NP_060337	Q9NWY4	CD027_HUMAN	hypothetical protein LOC54969							nucleus				ovary(1)|pancreas(1)	2		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.018)|LUSC - Lung squamous cell carcinoma(193;0.116)		CCCAAAAGGGAAAAAAAGTTT	0.348													4	2	---	---	---	---	
GALNTL6	442117	broad.mit.edu	37	4	173545914	173545914	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:173545914delT	uc003isv.2	+							NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						TCCTTGGTAGTTTTTTTTTTA	0.184													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	177391002	177391002	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177391002delT								SPCS3 (137608 upstream) : VEGFC (213689 downstream)																							AGGATAGGAATTTTTTTTTAA	0.338													3	3	---	---	---	---	
VEGFC	7424	broad.mit.edu	37	4	177605744	177605744	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177605744delG	uc003ius.1	-							NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C						angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		GAGGCATTCTGGGGCAGGGAG	0.537													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	179000834	179000834	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:179000834delA								LOC285501 (88931 upstream) : None (None downstream)																							CCACAGGTGGAAAAAAATGCC	0.423													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	179006005	179006005	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:179006005delT								LOC285501 (94102 upstream) : None (None downstream)																							TGGAAGGAACTTTTTTTAATA	0.308													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	180936561	180936562	+	IGR	INS	-	T	T	rs147359670	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:180936561_180936562insT								None (None upstream) : None (None downstream)																							GCTGTTTTGTGGTTGATGTGTG	0.361													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	180938799	180938799	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:180938799delT								None (None upstream) : None (None downstream)																							caatttcttatttttttgaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	184552805	184552805	+	IGR	DEL	T	-	-	rs10718523		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184552805delT								ING2 (120556 upstream) : RWDD4A (7984 downstream)																							AGTGGTCGGGTTTTTTTTTGT	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	187841161	187841161	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187841161delA								FAT1 (193311 upstream) : None (None downstream)																							GAAACAAAGCAGGAAGAGGCA	0.289													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190545398	190545399	+	IGR	INS	-	ATT	ATT	rs35790619		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190545398_190545399insATT								None (None upstream) : FRG1 (316575 downstream)																							ttgtggaagacgttgtgatcac	0.119													5	3	---	---	---	---	
CEP72	55722	broad.mit.edu	37	5	626157	626157	+	Intron	DEL	G	-	-	rs34715619		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:626157delG	uc003jbf.2	+						CEP72_uc011clz.1_Intron	NM_018140	NP_060610	Q9P209	CEP72_HUMAN	centrosomal protein 72 kDa						G2/M transition of mitotic cell cycle|gamma-tubulin complex localization|spindle organization	centrosome|cytosol				ovary(1)	1			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			tcttttgggtggGGGGCAGGG	0.144													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	1751851	1751851	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1751851delC								LOC728613 (117731 upstream) : MRPL36 (46649 downstream)																							CCTGTGAGGGCCACGGGCTTT	0.622													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	1859936	1859937	+	IGR	INS	-	T	T	rs147484208	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1859936_1859937insT								NDUFS6 (43773 upstream) : IRX4 (17604 downstream)																							gttttgttttgttttgttttTC	0.361													7	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	2146620	2146621	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:2146620_2146621insC								IRX4 (263740 upstream) : IRX2 (599660 downstream)																							CCTAATCACTTCCAGATCCTCC	0.406													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	3128477	3128477	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3128477delT								C5orf38 (372965 upstream) : IRX1 (467691 downstream)																							AGACTAAAAATAGCAGAAGAA	0.433													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	3814203	3814204	+	IGR	INS	-	G	G	rs144476733	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3814203_3814204insG								IRX1 (212687 upstream) : None (None downstream)																							GATCCTAGATTGATAAAGTTAG	0.342													3	3	---	---	---	---	
ADAMTS16	170690	broad.mit.edu	37	5	5196586	5196587	+	Intron	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5196586_5196587insC	uc003jdl.2	+						ADAMTS16_uc003jdk.1_Intron|ADAMTS16_uc003jdj.1_Intron	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GAGAAAGCCAGCCCCTCTAACC	0.475													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	8328976	8328976	+	IGR	DEL	C	-	-	rs115659352	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:8328976delC								MTRR (427743 upstream) : SEMA5A (706162 downstream)																							AGATTTTTTTCCCCCGATTCC	0.418													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	12987796	12987796	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:12987796delC								None (None upstream) : DNAH5 (702641 downstream)																							TTCATTTTGGCCCCCAAGAAT	0.463													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	15432285	15432285	+	IGR	DEL	T	-	-	rs113331300		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:15432285delT								ANKH (560398 upstream) : FBXL7 (68020 downstream)																							aatgcagtgcttttttttttt	0.144													2	4	---	---	---	---	
CDH18	1016	broad.mit.edu	37	5	19774157	19774157	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:19774157delT	uc003jgc.2	-						CDH18_uc003jgd.2_Intron|CDH18_uc011cnm.1_Intron	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TATTAATCACTTTTGGACATA	0.363													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	21319641	21319642	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:21319641_21319642delTG								None (None upstream) : GUSBP1 (22300 downstream)																							tgtcgtgtgttgtgtgtgtgtg	0.262													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	23352637	23352637	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:23352637delC								CDH12 (498906 upstream) : PRDM9 (155087 downstream)																							attcatgcctcccctttttag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	28492434	28492435	+	IGR	DEL	AG	-	-	rs34401883		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:28492434_28492435delAG								None (None upstream) : None (None downstream)																							TTGGAAAATCAGAGTGTTGAGC	0.416													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	28895425	28895425	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:28895425delT								None (None upstream) : None (None downstream)																							agttatcttattttttttttt	0.144													3	4	---	---	---	---	
CDH6	1004	broad.mit.edu	37	5	31250704	31250704	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31250704delT	uc003jhe.1	+						CDH6_uc003jhc.1_RNA|CDH6_uc003jhd.1_Intron	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						AGTACTGCCCTGTAAGGACTC	0.567													4	2	---	---	---	---	
CDH6	1004	broad.mit.edu	37	5	31269993	31269993	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31269993delA	uc003jhe.1	+						CDH6_uc003jhd.1_Intron	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						TATTTGCTGGAAAAAAAAATC	0.443													4	2	---	---	---	---	
RNASEN	29102	broad.mit.edu	37	5	31451317	31451317	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31451317delA	uc003jhg.2	-						RNASEN_uc003jhh.2_Intron|RNASEN_uc003jhi.2_Intron	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1						gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						accagaaaagaaaaaaaaaaT	0.189													4	4	---	---	---	---	
RNASEN	29102	broad.mit.edu	37	5	31471054	31471055	+	Intron	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31471054_31471055delCA	uc003jhg.2	-						RNASEN_uc003jhh.2_Intron|RNASEN_uc003jhi.2_Intron	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1						gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						AAATAGAATTCACAGTCTTACT	0.332													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	33065706	33065706	+	IGR	DEL	G	-	-	rs35799373		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33065706delG								C5orf23 (273887 upstream) : TARS (375096 downstream)																							CTTTCAAGCTGCTTTATGATT	0.353													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	34179622	34179622	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34179622delA								C1QTNF3 (136305 upstream) : RAI14 (476811 downstream)																							aaaaagaaagaaaagaaaaga	0.179													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	34419720	34419720	+	IGR	DEL	A	-	-	rs35293366		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34419720delA								C1QTNF3 (376403 upstream) : RAI14 (236713 downstream)																							tctcatgaagagctgaaatgc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	34572673	34572674	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34572673_34572674delTG								C1QTNF3 (529356 upstream) : RAI14 (83759 downstream)																							ctctcacctatgtgaggtttta	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	34599133	34599136	+	IGR	DEL	CACC	-	-	rs148956594	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34599133_34599136delCACC								C1QTNF3 (555816 upstream) : RAI14 (57297 downstream)																							cacacacacacacCCCCAAACCCA	0.333													4	2	---	---	---	---	
UGT3A2	167127	broad.mit.edu	37	5	36063251	36063252	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36063251_36063252insT	uc003jjz.1	-						UGT3A2_uc011cos.1_Intron|UGT3A2_uc011cot.1_Intron	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2							integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TTGCTTTTGGATTTtttttctt	0.218													4	2	---	---	---	---	
NIPBL	25836	broad.mit.edu	37	5	37058455	37058456	+	Intron	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37058455_37058456delCA	uc003jkl.3	+						NIPBL_uc003jkk.3_Intron|NIPBL_uc003jkn.2_Intron	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A						brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			TAATGTGCCCCACACACACACA	0.356													4	2	---	---	---	---	
NUP155	9631	broad.mit.edu	37	5	37318737	37318737	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37318737delA	uc003jku.1	-						NUP155_uc003jkt.1_Intron|NUP155_uc010iuz.1_Intron	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1						carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			tttaaaaatcaaaaaaaacgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	38251091	38251092	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:38251091_38251092delTG								GDNF (411309 upstream) : EGFLAM (7441 downstream)																							CTGCCATCTttgtgtgtgtgtg	0.297													4	3	---	---	---	---	
RICTOR	253260	broad.mit.edu	37	5	39068675	39068675	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39068675delT	uc003jlp.2	-						RICTOR_uc003jlo.2_Intron|RICTOR_uc010ivf.2_Intron|RICTOR_uc003jlq.1_Intron|RICTOR_uc011cpk.1_Intron	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR						actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					TTTTGTTTTGTTTTTTTATTT	0.338													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	44974416	44974416	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:44974416delC								MRPS30 (158802 upstream) : HCN1 (284937 downstream)																							ATGCAGAACTCCACAGGTCTA	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	45100560	45100560	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45100560delA								MRPS30 (284946 upstream) : HCN1 (158793 downstream)																							TCATGGGGATAAAAAAAGACA	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	45163581	45163581	+	IGR	DEL	T	-	-	rs34355706		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45163581delT								MRPS30 (347967 upstream) : HCN1 (95772 downstream)																							CCTCACACAGTTTCCATATCT	0.403													4	6	---	---	---	---	
HCN1	348980	broad.mit.edu	37	5	45623866	45623867	+	Intron	DEL	AG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45623866_45623867delAG	uc003jok.2	-							NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic							integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						tcattctggaagagagagagag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	49520816	49520816	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:49520816delG								None (None upstream) : EMB (171217 downstream)																							tgaaaagaaagtttcaactct	0.000													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	52519599	52519599	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:52519599delC								MOCS2 (114001 upstream) : FST (256996 downstream)																							atatgtccctccccagtaagg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	56286870	56286870	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56286870delA								MIER3 (19369 upstream) : GPBP1 (182905 downstream)																							gtctaatgggaaaaaaaaaaa	0.000													3	3	---	---	---	---	
RAB3C	115827	broad.mit.edu	37	5	58067643	58067644	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:58067643_58067644insT	uc003jrp.2	+							NM_138453	NP_612462	Q96E17	RAB3C_HUMAN	RAB3C, member RAS oncogene family						protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)|central_nervous_system(1)	2		all_cancers(5;9.93e-10)|all_epithelial(5;1.49e-10)|all_lung(5;8.97e-05)|Lung NSC(5;0.000139)|Prostate(74;0.0664)		OV - Ovarian serous cystadenocarcinoma(10;1.8e-34)		GTGAAAACATCtttttttttct	0.277													4	2	---	---	---	---	
RAB3C	115827	broad.mit.edu	37	5	58096693	58096693	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:58096693delC	uc003jrp.2	+							NM_138453	NP_612462	Q96E17	RAB3C_HUMAN	RAB3C, member RAS oncogene family						protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)|central_nervous_system(1)	2		all_cancers(5;9.93e-10)|all_epithelial(5;1.49e-10)|all_lung(5;8.97e-05)|Lung NSC(5;0.000139)|Prostate(74;0.0664)		OV - Ovarian serous cystadenocarcinoma(10;1.8e-34)		CTTAGGCTTTCCCCAGTCATT	0.438													4	2	---	---	---	---	
CWC27	10283	broad.mit.edu	37	5	64229132	64229132	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64229132delT	uc003jtn.1	+						CWC27_uc010iwt.1_Intron	NM_005869	NP_005860	Q6UX04	CWC27_HUMAN	serologically defined colon cancer antigen 10						protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity				0						AGAAACTGACTTTCCACACTA	0.219													4	2	---	---	---	---	
CWC27	10283	broad.mit.edu	37	5	64312530	64312530	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64312530delT	uc003jtn.1	+						CWC27_uc010iwt.1_Intron	NM_005869	NP_005860	Q6UX04	CWC27_HUMAN	serologically defined colon cancer antigen 10						protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity				0						AATTGTGACATTTTATTTCCC	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	64323064	64323065	+	IGR	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64323064_64323065delGT								CWC27 (8474 upstream) : ADAMTS6 (121499 downstream)																							AAGAGTGCAGGTGTGTGTGTGA	0.411													4	2	---	---	---	---	
MAST4	375449	broad.mit.edu	37	5	66104056	66104056	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:66104056delT	uc003jur.3	+						MAST4_uc010iwz.2_Intron	NM_198828	NP_942123	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase							cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		TGTTAGGTAGTTTTTTACAGG	0.488													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	67910785	67910785	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:67910785delA								PIK3R1 (313138 upstream) : SLC30A5 (479033 downstream)																							ggaaagacataaaaaagcatt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	68142815	68142816	+	IGR	INS	-	A	A	rs149666584	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68142815_68142816insA								PIK3R1 (545168 upstream) : SLC30A5 (247002 downstream)																							aaaagctttctaatgtggtgac	0.015													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	72233360	72233360	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72233360delA								TNPO1 (23146 upstream) : FCHO2 (18448 downstream)																							CGGGCCTTCCAAGTGTTGAGG	0.478													4	2	---	---	---	---	
FCHO2	115548	broad.mit.edu	37	5	72252034	72252035	+	Intron	INS	-	GGC	GGC	rs140511986	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72252034_72252035insGGC	uc003kcl.2	+						FCHO2_uc011csl.1_Intron|FCHO2_uc011csk.1_Intron	NM_138782	NP_620137	Q0JRZ9	FCHO2_HUMAN	FCH domain only 2 isoform a											ovary(1)	1		Lung NSC(167;0.0465)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;4.6e-53)		CGTGCGCTTCGGGCGGCGGCGG	0.658													17	12	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	72778043	72778044	+	IGR	INS	-	T	T	rs137958925	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72778043_72778044insT								FOXD1 (33691 upstream) : BTF3 (16206 downstream)																							aaaatcttccattttttttgtg	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	73473460	73473460	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73473460delA								RGNEF (236047 upstream) : ENC1 (449775 downstream)																							GTGCTAAGAGAAGGGCCAGCT	0.408													4	2	---	---	---	---	
COL4A3BP	10087	broad.mit.edu	37	5	74696694	74696697	+	Intron	DEL	ATTT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:74696694_74696697delATTT	uc011csu.1	-						COL4A3BP_uc003kds.2_Intron|COL4A3BP_uc003kdt.2_Intron|COL4A3BP_uc003kdu.2_Intron	NM_005713	NP_005704	Q9Y5P4	C43BP_HUMAN	alpha 3 type IV collagen binding protein isoform						ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)		AGTTGTTCTCATTTATTTCAACCA	0.412													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	76953135	76953135	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:76953135delA								OTP (18613 upstream) : TBCA (33860 downstream)																							agaggaaactaaaaaaactct	0.000													4	2	---	---	---	---	
LHFPL2	10184	broad.mit.edu	37	5	77792565	77792566	+	Intron	DEL	AT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:77792565_77792566delAT	uc003kfo.2	-							NM_005779	NP_005770	Q6ZUX7	LHPL2_HUMAN	lipoma HMGIC fusion partner-like 2							integral to membrane					0		all_lung(232;0.000409)|Lung NSC(167;0.00108)|Ovarian(174;0.0107)|Prostate(461;0.218)		OV - Ovarian serous cystadenocarcinoma(54;6.48e-46)|Epithelial(54;8.43e-42)|all cancers(79;1.42e-36)		AGTTATTCTCATATGAATTTAA	0.317													4	2	---	---	---	---	
HOMER1	9456	broad.mit.edu	37	5	78721074	78721074	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:78721074delA	uc003kfy.2	-						HOMER1_uc010jab.2_Intron|HOMER1_uc010jac.2_Intron|HOMER1_uc010jad.2_Intron	NM_004272	NP_004263	Q86YM7	HOME1_HUMAN	homer 1						activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic density|postsynaptic membrane					0		Lung NSC(167;0.00131)|all_lung(232;0.00151)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.87e-44)|Epithelial(54;7.07e-41)|all cancers(79;5.5e-36)		CCGGAGTAGGAAAAAAAAAAA	0.378													2	5	---	---	---	---	
SERINC5	256987	broad.mit.edu	37	5	79534900	79534900	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79534900delA	uc003kgj.2	-						SERINC5_uc003kgk.2_Intron|SERINC5_uc003kgl.2_Intron|SERINC5_uc003kgm.2_Intron|SERINC5_uc011ctj.1_Intron	NM_178276	NP_840060	Q86VE9	SERC5_HUMAN	developmentally regulated protein TPO1						phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1		Lung NSC(167;0.00328)|all_lung(232;0.00356)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;2.93e-46)|Epithelial(54;5.59e-40)|all cancers(79;1.89e-34)		ctgtttcctgaaaaaaactta	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	79657982	79657983	+	5'Flank	INS	-	T	T	rs137923621	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79657982_79657983insT	uc003kgo.2	-											SubName: Full=Putative uncharacterized protein; Flags: Fragment;																		cacacctggcattttttatatt	0.000													4	2	---	---	---	---	
FAM151B	167555	broad.mit.edu	37	5	79802447	79802447	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79802447delG	uc003kgv.1	+						FAM151B_uc010jal.1_Intron	NM_205548	NP_991111	Q6UXP7	F151B_HUMAN	hypothetical protein LOC167555												0		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;8.21e-47)|Epithelial(54;8.3e-42)|all cancers(79;1.97e-36)		catccaaagtggtatatttaa	0.154													4	2	---	---	---	---	
SSBP2	23635	broad.mit.edu	37	5	80756849	80756850	+	Intron	DEL	AA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80756849_80756850delAA	uc003kho.2	-						SSBP2_uc010jar.2_Intron|SSBP2_uc003khn.2_Intron|SSBP2_uc003khp.2_Intron|SSBP2_uc011ctp.1_Intron|SSBP2_uc011ctq.1_Intron|SSBP2_uc011ctr.1_Intron	NM_012446	NP_036578	P81877	SSBP2_HUMAN	single-stranded DNA binding protein 2						regulation of transcription, DNA-dependent	cytoplasm|nucleus	single-stranded DNA binding		SSBP2/JAK2(4)	haematopoietic_and_lymphoid_tissue(4)|skin(1)	5		Lung NSC(167;0.00154)|all_lung(232;0.00179)|Ovarian(174;0.0338)		OV - Ovarian serous cystadenocarcinoma(54;1.07e-41)|Epithelial(54;2.79e-35)|all cancers(79;1.18e-29)		GCaaaatattaaaaaaaatata	0.292													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	84697031	84697031	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:84697031delT								None (None upstream) : NBPF22P (881231 downstream)																							acaaaaactctttttttttgg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	85892726	85892726	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:85892726delA								NBPF22P (299364 upstream) : COX7C (21058 downstream)																							tggttgtcacagggtaagagg	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	92953080	92953080	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:92953080delT								NR2F1 (23302 upstream) : FAM172A (352 downstream)																							TTTAAAGACATTTTTTTTTCT	0.333													4	2	---	---	---	---	
MCTP1	79772	broad.mit.edu	37	5	94284173	94284173	+	Intron	DEL	G	-	-	rs159020	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94284173delG	uc003kkx.2	-						MCTP1_uc003kkv.2_Intron|MCTP1_uc003kkw.2_Intron|MCTP1_uc003kkz.2_Intron	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L						calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		GATTTTTTTTGGGTCCAAAAT	0.318													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	96545425	96545425	+	IGR	DEL	T	-	-	rs72293111		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96545425delT								RIOK2 (26420 upstream) : None (None downstream)																							ACAGTCTTGATTTTTTTTTTT	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	96996931	96996931	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96996931delA								RIOK2 (477926 upstream) : None (None downstream)																							AACACATTTCAAAATACACCA	0.274													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	98148677	98148678	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:98148677_98148678insT								RGMB (16481 upstream) : CHD1 (42231 downstream)																							tttgcattttgtttttttttta	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	98969792	98969793	+	IGR	INS	-	T	T	rs150193754		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:98969792_98969793insT								CHD1 (707554 upstream) : LOC100133050 (745416 downstream)																							tttattgacagttttttttaac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	99240018	99240018	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:99240018delT								CHD1 (977780 upstream) : LOC100133050 (475191 downstream)																							CTTCTCTCTCTTTCCTTATGG	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	99410871	99410871	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:99410871delT								None (None upstream) : LOC100133050 (304338 downstream)																							AAACAAACTAtttttttgttt	0.159													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	99539505	99539505	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:99539505delA								None (None upstream) : LOC100133050 (175704 downstream)																							ATAGTACTGCAAAATAAATAT	0.323													4	2	---	---	---	---	
PAM	5066	broad.mit.edu	37	5	102265573	102265574	+	Intron	INS	-	T	T	rs145035526		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:102265573_102265574insT	uc003knw.2	+						PAM_uc003kns.2_Intron|PAM_uc003knt.2_Intron|PAM_uc003knu.2_Intron|PAM_uc003knv.2_Intron|PAM_uc011cuz.1_Intron	NM_000919	NP_000910	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase						peptide metabolic process|protein modification process	extracellular region|integral to membrane|stored secretory granule	L-ascorbic acid binding|peptidylamidoglycolate lyase activity|peptidylglycine monooxygenase activity|protein binding				0		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	ttttgcgattcttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	103624374	103624374	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:103624374delT								NUDT12 (725884 upstream) : RAB9BP1 (810801 downstream)																							aatcttcccatttttttcatg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	103902282	103902283	+	IGR	DEL	TT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:103902282_103902283delTT								None (None upstream) : RAB9BP1 (532892 downstream)																							TTAAGTAAAATTTTTTTTTTGC	0.327													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	104775335	104775335	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:104775335delG								RAB9BP1 (339537 upstream) : None (None downstream)																							accagaggttggggagggtgg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	106362593	106362593	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:106362593delT								None (None upstream) : EFNA5 (349998 downstream)																							TCATTTTGACTTTTTTTTTTC	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	106571947	106571947	+	IGR	DEL	C	-	-	rs147010693		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:106571947delC								None (None upstream) : EFNA5 (140644 downstream)																							ttaccctcttcttgctctata	0.000													1	7	---	---	---	---	
FBXL17	64839	broad.mit.edu	37	5	107463174	107463175	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:107463174_107463175insA	uc011cvc.1	-						FBXL17_uc003kon.3_Intron	NM_001163315	NP_001156787	Q9UF56	FXL17_HUMAN	F-box and leucine-rich repeat protein 17												0		all_cancers(142;0.00273)|all_epithelial(76;0.000362)|Prostate(80;0.0115)|Myeloproliferative disorder(839;0.0393)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;9.63e-11)|Epithelial(69;4.02e-10)		AATGCACAGTCAAATTGGCATA	0.356													4	3	---	---	---	---	
FBXL17	64839	broad.mit.edu	37	5	107647396	107647396	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:107647396delA	uc011cvc.1	-						FBXL17_uc003kon.3_Intron	NM_001163315	NP_001156787	Q9UF56	FXL17_HUMAN	F-box and leucine-rich repeat protein 17												0		all_cancers(142;0.00273)|all_epithelial(76;0.000362)|Prostate(80;0.0115)|Myeloproliferative disorder(839;0.0393)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;9.63e-11)|Epithelial(69;4.02e-10)		TGGAGAATCTAAAAAAAAGAT	0.368													4	2	---	---	---	---	
FBXL17	64839	broad.mit.edu	37	5	107695875	107695875	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:107695875delC	uc011cvc.1	-						FBXL17_uc003kon.3_Intron	NM_001163315	NP_001156787	Q9UF56	FXL17_HUMAN	F-box and leucine-rich repeat protein 17												0		all_cancers(142;0.00273)|all_epithelial(76;0.000362)|Prostate(80;0.0115)|Myeloproliferative disorder(839;0.0393)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;9.63e-11)|Epithelial(69;4.02e-10)		tagttactttcatcagttttc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	108635438	108635438	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:108635438delA								FER (112065 upstream) : PJA2 (34973 downstream)																							GGTTGTTTCTAAAATTCAGAG	0.532													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	109204640	109204640	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:109204640delA								MAN2A1 (1211 upstream) : TMEM232 (420294 downstream)																							CAGATGAAATAAAAAAAAAAT	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	109224777	109224778	+	IGR	DEL	GA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:109224777_109224778delGA								MAN2A1 (21348 upstream) : TMEM232 (400156 downstream)																							GCTAATTAGGGAGAGAGAGAGA	0.391													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	111437671	111437672	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:111437671_111437672insA								C5orf13 (125043 upstream) : EPB41L4A (40466 downstream)																							ccccaaaggggaaaaaattggt	0.104													4	2	---	---	---	---	
MCC	4163	broad.mit.edu	37	5	112418897	112418897	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112418897delA	uc003kqj.3	-						MCC_uc003kqk.3_Intron|MCC_uc003kql.3_Intron|MCC_uc011cwb.1_Intron|MCC_uc010jcd.1_Intron	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2						negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		AAAGCAGTAGAAAAAAAAAAC	0.433													15	7	---	---	---	---	
MCC	4163	broad.mit.edu	37	5	112455400	112455400	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112455400delA	uc003kqj.3	-						MCC_uc003kqk.3_Intron|MCC_uc003kql.3_Intron|MCC_uc011cwb.1_Intron|MCC_uc010jcd.1_Intron	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2						negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		TGACTAAATGAAAAAAAAAAA	0.483													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	113123185	113123185	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:113123185delT								YTHDC2 (192206 upstream) : KCNN2 (574831 downstream)																							gtaatttcacttaggaaaatg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	113239927	113239928	+	IGR	INS	-	TT	TT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:113239927_113239928insTT								YTHDC2 (308948 upstream) : KCNN2 (458088 downstream)																							TTTTCTTTGTCTTTTTTTTTAT	0.322													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	114449171	114449171	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:114449171delA								KCNN2 (616975 upstream) : TRIM36 (11296 downstream)																							Atgttaacctaaaataatcaa	0.139													4	2	---	---	---	---	
SEMA6A	57556	broad.mit.edu	37	5	115810750	115810750	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:115810750delT	uc010jck.2	-						SEMA6A_uc003krx.3_Intron|SEMA6A_uc003krw.3_Intron|SEMA6A_uc010jcj.2_Intron	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and						apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		ATTTCTGAAATTTTTTTTCCT	0.279													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	116638330	116638330	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:116638330delA								SEMA6A (727779 upstream) : None (None downstream)																							taagaggaagaaaaaaaattg	0.080													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	117220289	117220289	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:117220289delA								None (None upstream) : DTWD2 (952282 downstream)																							ATTTCTCCCTAAAGATGTTCT	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	117585009	117585009	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:117585009delT								None (None upstream) : DTWD2 (587562 downstream)																							tggaatgacatttttaaagag	0.000													4	2	---	---	---	---	
DMXL1	1657	broad.mit.edu	37	5	118536450	118536450	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118536450delG	uc003ksd.2	+						DMXL1_uc010jcl.1_Intron	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1											ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		tttgcacagtgttttgtaatt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	120365416	120365416	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:120365416delA								PRR16 (342454 upstream) : FTMT (822234 downstream)																							ATTTTACCACAAAATCAATTT	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	120632759	120632759	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:120632759delG								PRR16 (609797 upstream) : FTMT (554891 downstream)																							gagcatggcaggggtattaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	121198124	121198125	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121198124_121198125delTG								FTMT (9603 upstream) : SRFBP1 (99531 downstream)																							tgtgtgtgcatgtgtgtgtgtg	0.282													4	2	---	---	---	---	
SNCAIP	9627	broad.mit.edu	37	5	121711436	121711436	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121711436delA	uc003ksw.1	+						SNCAIP_uc011cwl.1_Intron|SNCAIP_uc010jct.2_Intron|SNCAIP_uc003ksx.1_Intron|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein						cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		CAACAAATTGaaaaaaaataa	0.363													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	121955189	121955189	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121955189delA								SNCAIP (155395 upstream) : SNX2 (155561 downstream)																							gccctgttgcaaaaagtaggg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	123188066	123188066	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123188066delA								CSNK1G3 (235604 upstream) : ZNF608 (784544 downstream)																							TGTGTCACCCAAAGGGCCCTG	0.547													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	123395646	123395647	+	IGR	DEL	AG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123395646_123395647delAG								CSNK1G3 (443184 upstream) : ZNF608 (576963 downstream)																							gtgctcctgcagagagagagaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	123923696	123923697	+	IGR	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123923696_123923697delCA								CSNK1G3 (971234 upstream) : ZNF608 (48913 downstream)																							CCCCAGCATGcacacacacaca	0.351													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	124691545	124691545	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:124691545delT								ZNF608 (607045 upstream) : None (None downstream)																							cctgaacatctttttttttcc	0.000													4	2	---	---	---	---	
GRAMD3	65983	broad.mit.edu	37	5	125785750	125785750	+	Intron	DEL	T	-	-	rs74504299		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:125785750delT	uc003ktu.2	+						GRAMD3_uc011cwt.1_Intron|GRAMD3_uc011cwv.1_Intron|GRAMD3_uc011cww.1_Intron|GRAMD3_uc011cwx.1_Intron|GRAMD3_uc011cwu.1_Intron	NM_023927	NP_076416	Q96HH9	GRAM3_HUMAN	GRAM domain containing 3 isoform 2											central_nervous_system(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0401)|OV - Ovarian serous cystadenocarcinoma(64;0.0604)|all cancers(49;0.108)		TTTTGATCTCTTTTTTTTTTT	0.403													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	129190473	129190473	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:129190473delT								ADAMTS19 (116097 upstream) : CHSY3 (50050 downstream)																							GGCACTCTGATTTTTTTTTTA	0.348													4	2	---	---	---	---	
CHSY3	337876	broad.mit.edu	37	5	129500832	129500832	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:129500832delT	uc003kvd.2	+							NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3							Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		agtcatatgattacatcccgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	129940914	129940914	+	IGR	DEL	A	-	-	rs111910417		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:129940914delA								CHSY3 (418588 upstream) : HINT1 (553961 downstream)																							agaagagattaaaaaaaaaaa	0.284													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	130042989	130042989	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:130042989delT								CHSY3 (520663 upstream) : HINT1 (451886 downstream)																							GCTTCACAACTTTCTATACTC	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	131582079	131582079	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131582079delA								P4HA2 (18523 upstream) : PDLIM4 (11272 downstream)																							aaaaacacacaaaaaaaactt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	133224870	133224870	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133224870delA								FSTL4 (276647 upstream) : C5orf15 (66329 downstream)																							caaacgtgacaatggaaggag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	133729291	133729292	+	IGR	DEL	TT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133729291_133729292delTT								UBE2B (1493 upstream) : CDKN2AIPNL (8543 downstream)																							TTCCACTGACTTTAGGAACATT	0.252													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	133803479	133803480	+	IGR	DEL	CC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133803479_133803480delCC								CDKN2AIPNL (55890 upstream) : PHF15 (56586 downstream)																							CTTCCTCACACCTTAACCCTAG	0.267													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	133919951	133919952	+	IGR	INS	-	A	A	rs147559663	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133919951_133919952insA								PHF15 (1033 upstream) : SAR1B (22168 downstream)																							GAGACCTAATGAAAAATAGTTG	0.381													3	4	---	---	---	---	
DDX46	9879	broad.mit.edu	37	5	134124539	134124539	+	Intron	DEL	A	-	-	rs79733355		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134124539delA	uc003kzw.2	+						DDX46_uc003kzv.1_Intron	NM_014829	NP_055644	Q7L014	DDX46_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46						mRNA processing|RNA splicing	Cajal body|nuclear speck	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			actccgtctcaaaaaaaaaaa	0.095													4	2	---	---	---	---	
C5orf24	134553	broad.mit.edu	37	5	134180973	134180973	+	5'Flank	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134180973delG	uc003kzx.2	+						C5orf24_uc003kzy.3_5'Flank|C5orf24_uc003kzz.2_5'Flank	NM_152409	NP_689622	Q7Z6I8	CE024_HUMAN	hypothetical protein LOC134553												0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TTCATTACATGGGGGAAAAGG	0.478													4	2	---	---	---	---	
C5orf24	134553	broad.mit.edu	37	5	134194790	134194790	+	3'UTR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134194790delA	uc003kzx.2	+	2					C5orf24_uc003kzz.2_3'UTR	NM_152409	NP_689622	Q7Z6I8	CE024_HUMAN	hypothetical protein LOC134553												0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TGAGCTAAAGAAAAAAAAAAG	0.308													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	134814118	134814118	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134814118delT								TIFAB (26029 upstream) : NEUROG1 (55862 downstream)																							GGTTTTTTTGTTTTTTGGGTT	0.219													4	2	---	---	---	---	
MYOT	9499	broad.mit.edu	37	5	137101717	137101717	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137101717delA	uc011cye.1	+							NM_001135940	NP_001129412	Q9UBF9	MYOTI_HUMAN	myotilin isoform b						muscle contraction	actin cytoskeleton|sarcolemma|sarcomere	actin binding|structural constituent of muscle			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			aattgccaacaaaaaaaagtc	0.000													4	2	---	---	---	---	
ETF1	2107	broad.mit.edu	37	5	137877570	137877570	+	Intron	DEL	A	-	-	rs67438060		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137877570delA	uc003ldc.3	-						ETF1_uc011cyv.1_5'Flank|ETF1_uc010jex.2_Intron|ETF1_uc003ldd.3_Intron	NM_004730	NP_004721	P62495	ERF1_HUMAN	eukaryotic translation termination factor 1						nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation|regulation of translational termination	cytoplasm	protein binding|ribosome binding|translation release factor activity, codon specific			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GAACAACGTTAAAAAAAAAAG	0.363													0	9	---	---	---	---	
MATR3	9782	broad.mit.edu	37	5	138642829	138642829	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:138642829delT	uc003ldu.2	+						MATR3_uc003lds.2_Intron|MATR3_uc010jfb.2_Intron|MATR3_uc003ldt.2_Intron|MATR3_uc003ldw.2_Intron|MATR3_uc003ldx.2_Intron|MATR3_uc010jfc.2_Intron|MATR3_uc003ldy.2_Intron|MATR3_uc011czb.1_Intron|MATR3_uc003ldz.2_Intron|MATR3_uc003lea.2_5'Flank	NM_199189	NP_954659	P43243	MATR3_HUMAN	matrin 3							nuclear inner membrane|nuclear matrix	nucleotide binding|protein binding|RNA binding|structural molecule activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ATCTTAAATGTTTTTTTTTTA	0.264													4	3	---	---	---	---	
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	5	139821082	139821082	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139821082delT	uc003lfs.1	+						ANKHD1_uc003lfq.1_Intron|ANKHD1_uc003lfr.2_Intron|ANKHD1_uc003lfp.2_Intron|ANKHD1_uc003lfo.2_Intron|ANKHD1_uc010jfk.2_Intron	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein							cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			atgatctcacttttttttttc	0.000													4	2	---	---	---	---	
HARS	3035	broad.mit.edu	37	5	140054994	140054994	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140054994delT	uc003lgv.2	-						DND1_uc003lgt.2_5'Flank|HARS_uc003lgu.2_Intron|HARS_uc011czm.1_Intron|HARS_uc003lgw.2_Intron|HARS_uc011czn.1_Intron|HARS_uc010jfu.2_Intron|HARS_uc011czo.1_Intron|HARS_uc011czp.1_Intron	NM_002109	NP_002100	P12081	SYHC_HUMAN	histidyl-tRNA synthetase						histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)	ATGTAGTACCttttttttttt	0.184													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	141075650	141075650	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141075650delA								ARAP3 (13850 upstream) : PCDH1 (157033 downstream)																							TACAATGGCTAAAAAACACCG	0.458													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	144769006	144769006	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:144769006delT								KCTD16 (912062 upstream) : PRELID2 (369576 downstream)																							TCAATACCAGTTAATATCTGA	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	144990026	144990027	+	IGR	INS	-	A	A	rs72225981		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:144990026_144990027insA								None (None upstream) : PRELID2 (148555 downstream)																							ATTCTCAATTTAAAAAAAAAAA	0.277													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	145783585	145783588	+	IGR	DEL	ATAC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145783585_145783588delATAC								POU4F3 (63502 upstream) : TCERG1 (43285 downstream)																							ccgtctcTAAatacatacatacat	0.152													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	145958417	145958417	+	IGR	DEL	T	-	-	rs71636684		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145958417delT								GPR151 (62741 upstream) : PPP2R2B (10653 downstream)																							ttctaccaggttttttttttt	0.124													7	4	---	---	---	---	
PPP2R2B	5521	broad.mit.edu	37	5	146399788	146399788	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146399788delA	uc011dbv.1	-						PPP2R2B_uc003loi.3_Intron|PPP2R2B_uc003loh.3_Intron|PPP2R2B_uc003loj.3_Intron|PPP2R2B_uc003lok.3_Intron|PPP2R2B_uc011dbu.1_Intron	NM_181675	NP_858061	Q00005	2ABB_HUMAN	beta isoform of regulatory subunit B55, protein						apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ttgatcctggagaatcaaaac	0.104													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	147231172	147231175	+	IGR	DEL	TGTT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:147231172_147231175delTGTT								SPINK1 (19912 upstream) : SCGB3A2 (27099 downstream)																							AATTGGGTCATGTTATAAAGGACT	0.471													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	147348504	147348504	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:147348504delA								C5orf46 (62403 upstream) : SPINK5 (95031 downstream)																							ACAAAGGAGTAAAAAAAGTTT	0.269													4	2	---	---	---	---	
ABLIM3	22885	broad.mit.edu	37	5	148525356	148525356	+	Intron	DEL	T	-	-	rs142876080		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148525356delT	uc003lpy.2	+						ABLIM3_uc003lpz.1_Intron|ABLIM3_uc003lqa.1_Intron|ABLIM3_uc003lqb.2_Intron|ABLIM3_uc003lqc.1_Intron|ABLIM3_uc003lqd.1_Intron|ABLIM3_uc003lqf.2_Intron|ABLIM3_uc003lqe.1_Intron	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3						axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			cgtgtatgtcttttttttttt	0.000													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	149062283	149062286	+	IGR	DEL	GAAG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149062283_149062286delGAAG								ARHGEF37 (47756 upstream) : PPARGC1B (47578 downstream)																							aagtacttttgaaggaaggaagga	0.142													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	149233894	149233895	+	IGR	DEL	GT	-	-	rs79113144		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149233894_149233895delGT								PPARGC1B (6627 upstream) : PDE6A (3625 downstream)																							tgtggtgggggtgtgtgtgtgt	0.248													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	151841133	151841134	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:151841133_151841134delTG								NMUR2 (56293 upstream) : None (None downstream)																							TTAGTATTGCtgtgtgtgtgtg	0.252													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	152843189	152843189	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:152843189delT								None (None upstream) : GRIA1 (25986 downstream)																							ctccaggACGTTTTTTTAaaa	0.010													4	2	---	---	---	---	
GALNT10	55568	broad.mit.edu	37	5	153580530	153580531	+	Intron	INS	-	A	A	rs143063408	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:153580530_153580531insA	uc003lvh.2	+						GALNT10_uc003lvg.1_Intron|GALNT10_uc010jic.2_Intron	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			TACTAATTTCTGTTTtttttgt	0.208													4	2	---	---	---	---	
GALNT10	55568	broad.mit.edu	37	5	153733901	153733901	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:153733901delA	uc003lvh.2	+						GALNT10_uc003lvg.1_Intron|GALNT10_uc010jic.2_Intron|GALNT10_uc010jid.2_Intron	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			aaagtgattcaggaaacttca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	154852514	154852514	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154852514delA								KIF4B (454829 upstream) : SGCD (282549 downstream)																							ATGTTCCAGGAAAAAAAAAGA	0.313													4	2	---	---	---	---	
SGCD	6444	broad.mit.edu	37	5	155671115	155671115	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:155671115delA	uc003lwa.1	+							NM_172244	NP_758447	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 2						cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			gctacctggtaaaatgcagta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	156287399	156287400	+	IGR	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156287399_156287400delGT								PPP1R2P3 (7860 upstream) : TIMD4 (58893 downstream)																							gagagagagagtgtgtgtgtgt	0.124													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	156550783	156550783	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156550783delA								HAVCR2 (14645 upstream) : MED7 (14670 downstream)																							acacctggctaaaaaaaaatt	0.000													4	2	---	---	---	---	
CYFIP2	26999	broad.mit.edu	37	5	156771867	156771867	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156771867delC	uc003lwq.2	+						CYFIP2_uc011ddn.1_Intron|CYFIP2_uc011ddo.1_Intron|CYFIP2_uc003lwr.2_Intron|CYFIP2_uc003lws.2_Intron|CYFIP2_uc003lwt.2_Intron|CYFIP2_uc011ddp.1_Intron|C5orf40_uc003lwu.2_Intron	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2						apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CCTCTGCTTTCCCCCATCCTC	0.443													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	157035816	157035816	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157035816delA								ADAM19 (33048 upstream) : SOX30 (16871 downstream)																							AGTTCTCCATAAAAAACCTCA	0.567													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	157508580	157508580	+	IGR	DEL	T	-	-	rs78550026		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157508580delT								CLINT1 (222412 upstream) : EBF1 (614344 downstream)																							tggctacaagtttttttttgg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	157852101	157852101	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157852101delA								CLINT1 (565933 upstream) : EBF1 (270823 downstream)																							GCTTTTGGataaaaaaaaaaa	0.368													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	157908824	157908824	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157908824delT								CLINT1 (622656 upstream) : EBF1 (214100 downstream)																							gccagaatgattttttttttc	0.000													6	4	---	---	---	---	
EBF1	1879	broad.mit.edu	37	5	158183273	158183273	+	Intron	DEL	T	-	-	rs77519368		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158183273delT	uc010jip.2	-						EBF1_uc011ddw.1_Intron|EBF1_uc011ddx.1_Intron|EBF1_uc003lxl.3_Intron	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor						multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGTGTGAGAATTTTTTTTTTT	0.453			T	HMGA2	lipoma								3	3	---	---	---	---	
EBF1	1879	broad.mit.edu	37	5	158289226	158289227	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158289226_158289227insA	uc010jip.2	-						EBF1_uc011ddw.1_Intron|EBF1_uc011ddx.1_Intron|EBF1_uc003lxl.3_Intron	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor						multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGTTTCATCTGAAAAAAAAATG	0.277			T	HMGA2	lipoma								4	3	---	---	---	---	
EBF1	1879	broad.mit.edu	37	5	158348988	158348989	+	Intron	DEL	AG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158348988_158348989delAG	uc010jip.2	-						EBF1_uc011ddw.1_Intron|EBF1_uc011ddx.1_Intron|EBF1_uc003lxl.3_Intron	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor						multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATCTTCTAAAAGAGAGAGAGAG	0.446			T	HMGA2	lipoma								4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	159226826	159226826	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159226826delT								LOC285627 (333542 upstream) : ADRA1B (116914 downstream)																							CGCCAAAGCCTTTTCCACTGA	0.463													4	2	---	---	---	---	
ATP10B	23120	broad.mit.edu	37	5	160268259	160268259	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:160268259delT	uc003lym.1	-						ATP10B_uc003lyp.2_Intron|ATP10B_uc011deg.1_Intron	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B						ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ggaagatctctacgaactgat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	160344642	160344642	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:160344642delC								ATP10B (65423 upstream) : LOC285629 (14146 downstream)																							CATTTGTGTGCCTCGATTGGG	0.458													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	162446290	162446290	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:162446290delT								GABRG2 (863746 upstream) : CCNG1 (418287 downstream)																							CACACAGATATTTTTAATGAA	0.313													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	164020753	164020753	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:164020753delA	uc003lzn.2	+											Homo sapiens, clone IMAGE:4479080, mRNA, partial cds.																		aaaaaaaattaaaaaaaaaca	0.100													3	3	---	---	---	---	
ODZ2	57451	broad.mit.edu	37	5	167471936	167471936	+	Intron	DEL	A	-	-	rs74990811		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167471936delA	uc010jjd.2	+						ODZ2_uc003lzq.2_Intron|ODZ2_uc003lzr.3_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		ATGGCTGATTAAAAAAAAAAA	0.398													2	4	---	---	---	---	
DOCK2	1794	broad.mit.edu	37	5	169468675	169468676	+	Intron	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169468675_169468676insG	uc003maf.2	+						DOCK2_uc011der.1_Intron|DOCK2_uc010jjm.2_Intron	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2						actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAGGACAGGCAGGGGGAAGCTA	0.485													4	2	---	---	---	---	
RANBP17	64901	broad.mit.edu	37	5	170353714	170353715	+	Intron	INS	-	G	G	rs56077059	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:170353714_170353715insG	uc003mba.2	+						RANBP17_uc003max.1_Intron|RANBP17_uc003may.1_Intron|RANBP17_uc003maz.1_Intron|RANBP17_uc010jjr.1_Intron	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17						mRNA transport|protein import into nucleus|transmembrane transport	cytoplasm|nuclear pore	GTP binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00751)|all_lung(126;0.0123)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AAATTAAAAAACTTAAAATGTG	0.114			T	TRD@	ALL								4	2	---	---	---	---	
STK10	6793	broad.mit.edu	37	5	171475808	171475809	+	Intron	DEL	AG	-	-	rs150132127		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171475808_171475809delAG	uc003mbo.1	-							NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10								ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			catctcacacagagtaaaagcc	0.000													3	5	---	---	---	---	
STK10	6793	broad.mit.edu	37	5	171617739	171617739	+	5'Flank	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171617739delA	uc003mbo.1	-							NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10								ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			actccgtctcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
ERGIC1	57222	broad.mit.edu	37	5	172286492	172286493	+	Intron	INS	-	A	A	rs140388993	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:172286492_172286493insA	uc003mbw.3	+							NM_001031711	NP_001026881	Q969X5	ERGI1_HUMAN	endoplasmic reticulum-golgi intermediate						ER to Golgi vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	protein binding			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00344)|all_lung(126;0.00594)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TGAAGGGTGGGAAAAAAAAATG	0.347													2	5	---	---	---	---	
C5orf41	153222	broad.mit.edu	37	5	172561566	172561566	+	3'UTR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:172561566delA	uc003mch.2	+	9						NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor								protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AAAAAACAACAAAAAAAAGAT	0.299													4	2	---	---	---	---	
C5orf41	153222	broad.mit.edu	37	5	172563231	172563231	+	3'UTR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:172563231delA	uc003mch.2	+	9						NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor								protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CTTGCATTTCAAAAAAAAAAA	0.284													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	173466959	173466959	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:173466959delT								C5orf47 (33817 upstream) : HMP19 (5765 downstream)																							CTGCTTACTGTTTTTTTTGCT	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	174069542	174069542	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:174069542delA								HMP19 (533361 upstream) : MSX2 (82033 downstream)																							GAAAAGTCTCAAAAAAAAAAC	0.174													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	174765250	174765252	+	IGR	DEL	CTT	-	-	rs143150127		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:174765250_174765252delCTT								MSX2 (607349 upstream) : DRD1 (102424 downstream)																							ttcctgtctccttcttcttcttc	0.113													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	177005096	177005096	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177005096delT								FAM193B (23558 upstream) : TMED9 (14117 downstream)																							CCCCAAAttcttttttttttt	0.194													2	4	---	---	---	---	
COL23A1	91522	broad.mit.edu	37	5	177719234	177719235	+	Intron	INS	-	C	C	rs143960765	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177719234_177719235insC	uc003mje.2	-							NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1							collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		GCCCGCACCTGCCCCTGCACCT	0.594													2	6	---	---	---	---	
ADAMTS2	9509	broad.mit.edu	37	5	178627960	178627960	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178627960delG	uc003mjw.2	-						ADAMTS2_uc011dgm.1_Intron	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1						collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		GGCATGAATAGGCCAAGCAAA	0.333													4	2	---	---	---	---	
ADAMTS2	9509	broad.mit.edu	37	5	178650360	178650361	+	Intron	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178650360_178650361delCA	uc003mjw.2	-						ADAMTS2_uc011dgm.1_Intron	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1						collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		cgaatgcactcagacactcaca	0.025													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	178908695	178908695	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178908695delA								ADAMTS2 (136366 upstream) : RUFY1 (68876 downstream)																							aacTCTAGGGAAAAAAAAAAA	0.204													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	2452532	2452532	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:2452532delG	uc003mtu.1	+						uc003mtv.2_5'Flank					Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1572223.																		AGAAGATGCTGGAAGAGCCGT	0.507													4	2	---	---	---	---	
F13A1	2162	broad.mit.edu	37	6	6284653	6284653	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6284653delT	uc003mwv.2	-						F13A1_uc011dib.1_Intron	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor						peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	TCTCCACTACTTCATTTCCGT	0.378													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	9096075	9096075	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:9096075delT								HULC (441998 upstream) : None (None downstream)																							ATCTGCAATATTACTTTGACC	0.458													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	12438548	12438548	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12438548delA								EDN1 (141122 upstream) : PHACTR1 (278340 downstream)																							TTGCCCAAAGAAAAAAAAAAG	0.333													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	12637739	12637739	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12637739delA								EDN1 (340313 upstream) : PHACTR1 (79149 downstream)																							atttagagataaaaaaattga	0.035													2	4	---	---	---	---	
PHACTR1	221692	broad.mit.edu	37	6	12915384	12915385	+	Intron	INS	-	CA	CA			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12915384_12915385insCA	uc010jpc.2	+						PHACTR1_uc011dir.1_Intron|PHACTR1_uc003nag.1_Intron|PHACTR1_uc003nah.1_Intron|PHACTR1_uc003nai.2_Intron	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1							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)			ctttggatgtccacacacacac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	14943565	14943565	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:14943565delA								CD83 (806419 upstream) : JARID2 (302169 downstream)																							TGACACACTCAAGGCCAGAGC	0.512													7	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	16824022	16824022	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:16824022delT								ATXN1 (62301 upstream) : RBM24 (457787 downstream)																							TCAATTGTTCTTTTTTTTTGG	0.398													4	2	---	---	---	---	
NUP153	9972	broad.mit.edu	37	6	17649120	17649120	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17649120delA	uc003ncd.1	-						NUP153_uc011dje.1_Intron|NUP153_uc010jpl.1_Intron	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa						carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			ACTCCTACCCAAAAAGCATCT	0.299													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	18623229	18623229	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18623229delT	uc003nct.1	+											Homo sapiens cDNA FLJ25799 fis, clone TST07088.																		gtatttggcctttttttttca	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	18788547	18788547	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18788547delT								MIR548A1 (216436 upstream) : None (None downstream)																							TATTTTTACCTTTTTTTTTCC	0.289													4	2	---	---	---	---	
E2F3	1871	broad.mit.edu	37	6	20472391	20472394	+	Intron	DEL	AAAT	-	-	rs71777391		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20472391_20472394delAAAT	uc003nda.2	+						E2F3_uc003ncz.2_Intron	NM_001949	NP_001940	O00716	E2F3_HUMAN	E2F transcription factor 3						G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(95;0.154)|all_epithelial(95;0.0585)|Breast(50;0.146)|Ovarian(93;0.148)		OV - Ovarian serous cystadenocarcinoma(7;0.0068)|all cancers(50;0.0148)|Epithelial(50;0.0562)			GGTTCATTCAAAATAAATAAGTCA	0.397													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	23324770	23324770	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:23324770delT								HDGFL1 (754021 upstream) : NRSN1 (801644 downstream)																							TAAAGTTAACTTTTTTTCACT	0.333													4	3	---	---	---	---	
CMAH	8418	broad.mit.edu	37	6	25154806	25154807	+	Intron	DEL	TT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25154806_25154807delTT	uc011djv.1	-											Homo sapiens CMP-N-acetylneuraminic acid hydroxylase mRNA, complete cds.												0						gaaccataccttttacttaaat	0.000													4	2	---	---	---	---	
SLC17A4	10050	broad.mit.edu	37	6	25752086	25752086	+	5'Flank	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25752086delA	uc003nfe.2	+						SLC17A4_uc011djx.1_5'Flank	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),						phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						AAGAAAAAAGAAAAAAAAAGA	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	26352070	26352072	+	IGR	DEL	AAG	-	-	rs142771121		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26352070_26352072delAAG								HIST1H4H (66308 upstream) : BTN3A2 (13326 downstream)																							tcatcatcataagaagaaggggg	0.000													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	28177465	28177465	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28177465delA								ZNF389 (40090 upstream) : LOC222699 (5651 downstream)																							ATAGTTATTTAAAATGGGAAA	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	29251850	29251850	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29251850delA								OR2J2 (109500 upstream) : OR14J1 (22617 downstream)																							atgctgccataaaaaagaatg	0.000													4	2	---	---	---	---	
TNXB	7148	broad.mit.edu	37	6	32056351	32056353	+	Intron	DEL	TAA	-	-	rs150608892		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32056351_32056353delTAA	uc003nzl.2	-							NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor						actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GGCTAACCTGTAATAACCTTCCT	0.527													3	5	---	---	---	---	
ANKS1A	23294	broad.mit.edu	37	6	35014536	35014537	+	Intron	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35014536_35014537insG	uc003ojx.3	+						ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Intron|ANKS1A_uc010jvp.1_Intron	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain							cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						tatagttatttgggggtagggg	0.000													4	2	---	---	---	---	
TBC1D22B	55633	broad.mit.edu	37	6	37247525	37247525	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37247525delT	uc003onn.2	+						TBC1D22B_uc010jwt.2_Intron	NM_017772	NP_060242	Q9NU19	TB22B_HUMAN	TBC1 domain family, member 22B							intracellular	Rab GTPase activator activity				0			OV - Ovarian serous cystadenocarcinoma(102;0.241)			AGATGTGACATCATTAAGCCT	0.493													12	6	---	---	---	---	
ZFAND3	60685	broad.mit.edu	37	6	37789288	37789288	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37789288delT	uc003onx.2	+							NM_021943	NP_068762	Q9H8U3	ZFAN3_HUMAN	zinc finger, AN1-type domain 3								DNA binding|zinc ion binding			ovary(1)	1						aaactgaggctttgggtggat	0.129													4	2	---	---	---	---	
FOXP4	116113	broad.mit.edu	37	6	41569763	41569763	+	3'UTR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41569763delT	uc003oql.2	+	17					FOXP4_uc003oqm.2_3'UTR|FOXP4_uc003oqn.2_3'UTR	NM_001012426	NP_001012426	Q8IVH2	FOXP4_HUMAN	forkhead box P4 isoform 1						embryonic foregut morphogenesis|heart development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					CTCTCAGGCATGTCTTTTGTC	0.537													4	2	---	---	---	---	
MDFI	4188	broad.mit.edu	37	6	41608844	41608844	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41608844delA	uc003oqp.3	+						MDFI_uc003oqq.3_Intron|MDFI_uc010jxn.2_Intron	NM_005586	NP_005577	Q99750	MDFI_HUMAN	MyoD family inhibitor						cytoplasmic sequestering of transcription factor|dorsal/ventral axis specification|negative regulation of DNA binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of Wnt receptor signaling pathway	cytoplasm|nucleus					0	Ovarian(28;0.0327)|Colorectal(47;0.121)		Colorectal(64;0.0123)|COAD - Colon adenocarcinoma(64;0.0264)|KIRC - Kidney renal clear cell carcinoma(1;0.138)			GTTCAGGTCCAGGTGCCACCC	0.522													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	45680176	45680176	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:45680176delT								RUNX2 (161358 upstream) : CLIC5 (186014 downstream)																							TTTTTAAGACTTTTTTTTTAT	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	48897254	48897255	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:48897254_48897255insC								C6orf138 (818311 upstream) : MUT (501739 downstream)																							TCTACAATTTTCCCTTTTGGAA	0.213													4	2	---	---	---	---	
GLYATL3	389396	broad.mit.edu	37	6	49483662	49483663	+	Intron	DEL	CT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:49483662_49483663delCT	uc003ozi.2	+							NM_001010904	NP_001010904	Q5SZD4	GLYL3_HUMAN	glycine N-acyltransferase-like protein 3							mitochondrion	glycine N-acyltransferase activity				0						ctctccctccctctctctctct	0.094													4	2	---	---	---	---	
LRRC1	55227	broad.mit.edu	37	6	53658031	53658031	+	5'Flank	DEL	T	-	-	rs11363570		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53658031delT	uc003pcd.1	+							NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1							cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		CCTTCTTTAATTTTTTTTTTA	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	54144988	54144988	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54144988delA								C6orf142 (13914 upstream) : TINAG (28215 downstream)																							acaaaaatagaaaaaaatctt	0.000													3	4	---	---	---	---	
KIAA1586	57691	broad.mit.edu	37	6	56914768	56914769	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56914768_56914769insA	uc003pdj.2	+						KIAA1586_uc011dxm.1_Intron	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691								nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TCATTTCAGTTAAAAAAAATTG	0.302													4	2	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57225972	57225973	+	Intron	INS	-	ATGG	ATGG	rs145536477	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57225972_57225973insATGG	uc003pdx.2	+						PRIM2_uc003pdw.2_Intron	NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2						DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		GAAGGAAAGCTATGGATGGGGT	0.426													5	3	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57323077	57323077	+	Intron	DEL	G	-	-	rs67240761		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57323077delG	uc003pdx.2	+							NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2						DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		aagcattgcaggaaaaaaaca	0.000													4	2	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57435808	57435811	+	Intron	DEL	AAAC	-	-	rs10552360		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57435808_57435811delAAAC	uc003pdx.2	+							NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2						DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		AAAATTAAGTAAACAATATTGATT	0.275													4	3	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57469140	57469141	+	Intron	INS	-	ACAC	ACAC	rs112377419		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57469140_57469141insACAC	uc003pdx.2	+							NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2						DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		ggatttcatttacacgttatac	0.000													3	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57539613	57539614	+	IGR	DEL	TT	-	-	rs62405834		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57539613_57539614delTT								PRIM2 (26238 upstream) : GUSBL2 (706545 downstream)																							CCTTGGAACCTTTCTCTCTCTG	0.416													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57540010	57540010	+	IGR	DEL	C	-	-	rs66493514		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57540010delC								PRIM2 (26635 upstream) : GUSBL2 (706149 downstream)																							gcGCTTTTCACTGTCTTACCC	0.219													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	64295284	64295285	+	IGR	DEL	AA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64295284_64295285delAA								PTP4A1 (1796 upstream) : PHF3 (50440 downstream)																							gcttatcctcaaaaaaaaaaaa	0.000													3	4	---	---	---	---	
EYS	346007	broad.mit.edu	37	6	65027317	65027317	+	Intron	DEL	A	-	-	rs35545495		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:65027317delA	uc011dxu.1	-						EYS_uc011dxt.1_Intron	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						caaacagatgaaaaaaagctc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	67262145	67262145	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:67262145delA								MCART3P (762770 upstream) : None (None downstream)																							AGAGTGAAACAAAAAAAACTC	0.289													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	68830993	68830994	+	IGR	DEL	AA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:68830993_68830994delAA								None (None upstream) : BAI3 (514638 downstream)																							agcagaaggcaaaagaggagca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	77036840	77036841	+	IGR	DEL	GA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:77036840_77036841delGA								IMPG1 (254505 upstream) : None (None downstream)																							gtgtttcatggagagagacaca	0.124													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	77560476	77560476	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:77560476delA								IMPG1 (778141 upstream) : HTR1B (611472 downstream)																							gtatgaatgtaactgtttctt	0.104													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	79304335	79304336	+	IGR	INS	-	A	A	rs149022775	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:79304335_79304336insA								None (None upstream) : IRAK1BP1 (272853 downstream)																							agtcgacatataatctctaatt	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	81252101	81252101	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:81252101delT								BCKDHB (196114 upstream) : None (None downstream)																							GTTAGACAGCTTTTTAGTGAA	0.418													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	86401024	86401024	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86401024delA								SNHG5 (12573 upstream) : None (None downstream)																							GACtgttgggaaagacagttg	0.060													4	2	---	---	---	---	
ORC3L	23595	broad.mit.edu	37	6	88325735	88325736	+	Intron	DEL	AA	-	-	rs35620134		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88325735_88325736delAA	uc003pmh.2	+						ORC3L_uc011dzl.1_Intron|ORC3L_uc011dzm.1_Intron|ORC3L_uc011dzn.1_Intron|ORC3L_uc003pmg.2_Intron|ORC3L_uc003pmi.2_Intron|ORC3L_uc011dzo.1_Intron|ORC3L_uc011dzp.1_Intron	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2						cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)		TCTGGTGAGGAAAAAAAAAAGG	0.302													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	88715065	88715065	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88715065delT								AKIRIN2 (303080 upstream) : SPACA1 (42442 downstream)																							CAAGAGTGCCTCATGAATAAA	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	91500502	91500502	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91500502delT								MAP3K7 (203595 upstream) : None (None downstream)																							Ccccctggtatttctaaagta	0.199													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	92579488	92579488	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:92579488delT								None (None upstream) : None (None downstream)																							AATTGACCTGTTTTTGTATGG	0.159													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	94849375	94849376	+	IGR	DEL	GT	-	-	rs66897867		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:94849375_94849376delGT								TSG1 (363176 upstream) : None (None downstream)																							CTAAATTTTGgtgtgtgtgtgt	0.238													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	100340761	100340761	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100340761delT								PRDM13 (277307 upstream) : MCHR2 (27025 downstream)																							ctctatgggatttttctctgc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	100642618	100642618	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100642618delC								MCHR2 (200504 upstream) : SIM1 (194133 downstream)																							ACTGACCTAACCCCAAACAAC	0.413													4	2	---	---	---	---	
ZBTB24	9841	broad.mit.edu	37	6	109797861	109797862	+	Intron	INS	-	TTGGAAATGATACTAGGC	TTGGAAATGATACTAGGC			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:109797861_109797862insTTGGAAATGATACTAGGC	uc003ptl.1	-						ZBTB24_uc011ear.1_Intron|ZBTB24_uc010kds.1_Intron|ZBTB24_uc010kdt.1_Intron	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		ATGACACCACGTTGGAAATGAT	0.480													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	112320452	112320452	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112320452delA								FYN (125825 upstream) : WISP3 (54826 downstream)																							ACTCACCATTAAAAAAAAAAA	0.249													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	112702233	112702233	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112702233delA								RFPL4B (29735 upstream) : None (None downstream)																							tgtggaccctaaaaagtcaag	0.109													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	114185341	114185341	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:114185341delA								MARCKS (691 upstream) : FLJ34503 (40210 downstream)																							CAGGAATTTTAAAATGCTTTT	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	115946664	115946665	+	IGR	INS	-	ATC	ATC	rs147768473		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:115946664_115946665insATC								None (None upstream) : FRK (316028 downstream)																							gctttcaagatattctattaac	0.000													3	3	---	---	---	---	
NT5DC1	221294	broad.mit.edu	37	6	116560477	116560477	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116560477delT	uc003pwj.2	+						NT5DC1_uc003pwk.2_Intron|NT5DC1_uc003pwl.2_Intron	NM_152729	NP_689942	Q5TFE4	NT5D1_HUMAN	5'-nucleotidase, cytosolic II-like 1 protein								hydrolase activity|metal ion binding				0		all_cancers(87;0.00367)|all_epithelial(87;0.00449)|Colorectal(196;0.0469)		all cancers(137;0.0327)|OV - Ovarian serous cystadenocarcinoma(136;0.0445)|GBM - Glioblastoma multiforme(226;0.0719)|Epithelial(106;0.112)		agctcaacaatttttttttta	0.080													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	117578429	117578430	+	IGR	INS	-	AAGCC	AAGCC	rs138466785	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117578429_117578430insAAGCC								RFX6 (325121 upstream) : VGLL2 (8291 downstream)																							GAGCCCCAGAAAAGCCTTTCAG	0.490													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	121663675	121663675	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:121663675delA								C6orf170 (8031 upstream) : GJA1 (93070 downstream)																							ggacatacttacatgaacaca	0.000													4	2	---	---	---	---	
NKAIN2	154215	broad.mit.edu	37	6	124564656	124564656	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:124564656delA	uc003pzo.2	+						NKAIN2_uc003pzn.1_Intron|NKAIN2_uc003pzp.2_Intron|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010kep.1_Intron	NM_001040214	NP_001035304	Q5VXU1	NKAI2_HUMAN	T-cell lymphoma breakpoint-associated target 1							integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)		aaaaggaaagaaaaaaaaaaa	0.010													4	2	---	---	---	---	
NKAIN2	154215	broad.mit.edu	37	6	124917200	124917200	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:124917200delA	uc003pzo.2	+						NKAIN2_uc003pzn.1_Intron|NKAIN2_uc003pzp.2_Intron|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010ker.2_Intron	NM_001040214	NP_001035304	Q5VXU1	NKAI2_HUMAN	T-cell lymphoma breakpoint-associated target 1							integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)		CCTTGAAGAGAAAAAAAAGTA	0.413													4	2	---	---	---	---	
PTPRK	5796	broad.mit.edu	37	6	128583562	128583562	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128583562delT	uc003qbk.2	-						PTPRK_uc003qbj.2_Intron|PTPRK_uc010kfc.2_Intron|PTPRK_uc011ebu.1_Intron|PTPRK_uc003qbl.1_Intron|PTPRK_uc011ebv.1_Intron	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K						cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		TTATCCTAAATTTTTGGCCTT	0.303													4	2	---	---	---	---	
LAMA2	3908	broad.mit.edu	37	6	129513621	129513621	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:129513621delA	uc003qbn.2	+						LAMA2_uc003qbo.2_Intron	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor						cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		AACATCAAGGAAAAAAAATAA	0.279													4	2	---	---	---	---	
SAMD3	154075	broad.mit.edu	37	6	130636269	130636270	+	Intron	INS	-	T	T	rs148537965	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130636269_130636270insT	uc003qbx.2	-							NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform											ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		TCACAGCAATATTTTTGGCTTA	0.351													4	3	---	---	---	---	
EPB41L2	2037	broad.mit.edu	37	6	131290110	131290110	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:131290110delA	uc003qch.2	-						EPB41L2_uc003qcg.1_Intron|EPB41L2_uc011eby.1_Intron|EPB41L2_uc003qci.2_Intron|EPB41L2_uc010kfk.2_Intron|EPB41L2_uc010kfl.1_Intron	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2						cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		GGAGTCCACCAAAAAATGCAA	0.343													4	2	---	---	---	---	
PDE7B	27115	broad.mit.edu	37	6	136266620	136266621	+	Intron	INS	-	CTC	CTC	rs146213434	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136266620_136266621insCTC	uc003qgp.2	+						uc003qgq.1_Intron	NM_018945	NP_061818	Q9NP56	PDE7B_HUMAN	phosphodiesterase 7B						signal transduction|synaptic transmission	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(1)	1	Colorectal(23;0.24)			OV - Ovarian serous cystadenocarcinoma(155;0.0136)|GBM - Glioblastoma multiforme(68;0.0147)	Dyphylline(DB00651)|Ketotifen(DB00920)	CAACTGTCCATCTCCACATAAT	0.401													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	136524432	136524433	+	Intron	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136524432_136524433delTG	uc003qgq.1	-											Homo sapiens cDNA clone IMAGE:5266948.																		tgtgtttacatgtgtgtgtgtg	0.114													4	2	---	---	---	---	
TNFAIP3	7128	broad.mit.edu	37	6	138189598	138189598	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138189598delT	uc003qhr.2	+						uc003qhq.1_5'Flank|TNFAIP3_uc003qhs.2_Intron	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3						anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		GCTGCTTTGATTTTTTTTTCA	0.333			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	140458234	140458235	+	IGR	INS	-	C	C	rs138051678	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:140458234_140458235insC								CITED2 (762449 upstream) : None (None downstream)																							TAAGCCCACTTCTCACACTTTC	0.332													0	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	142781103	142781104	+	IGR	INS	-	TAAGG	TAAGG	rs10629378		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:142781103_142781104insTAAGG								GPR126 (13702 upstream) : LOC153910 (66488 downstream)																							TCACTTTCTATTAAGTTCAGTT	0.277													1	6	---	---	---	---	
PHACTR2	9749	broad.mit.edu	37	6	143940408	143940409	+	Intron	DEL	TC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:143940408_143940409delTC	uc003qjq.3	+						PHACTR2_uc010khh.2_Intron	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3								actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		cctagttaattcagaatctccc	0.064													4	2	---	---	---	---	
STX11	8676	broad.mit.edu	37	6	144479130	144479130	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144479130delA	uc003qks.3	+							NM_003764	NP_003755	O75558	STX11_HUMAN	syntaxin 11						cellular membrane fusion|intracellular protein transport|vesicle-mediated transport	Golgi apparatus|membrane	SNAP receptor activity			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(155;2.17e-06)|GBM - Glioblastoma multiforme(68;0.0492)		ggggaaaaacaaaaaaaaaag	0.154									Familial_Hemophagocytic_Lymphohistiocytosis				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	146159304	146159304	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146159304delC	uc003qky.1	+						uc003qlb.2_Intron|uc010khs.1_Intron|uc003qlc.2_Intron					Homo sapiens cDNA FLJ42767 fis, clone BRAWH3003343.																		CCAtctttgtccatttgcgtt	0.199													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	146781535	146781535	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146781535delT								GRM1 (22804 upstream) : RAB32 (83293 downstream)																							atttaagtccttttttttttc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	146903469	146903469	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146903469delA								RAB32 (27383 upstream) : C6orf103 (16667 downstream)																							AGTAAATGGGAAAAAAAAAAC	0.318													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	153980739	153980739	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153980739delC								RGS17 (528350 upstream) : OPRM1 (350897 downstream)																							tgcaagaattccccccagttg	0.174													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	154055574	154055574	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154055574delA								RGS17 (603185 upstream) : OPRM1 (276062 downstream)																							AGCACACTATAAAAAAAATTT	0.294													4	2	---	---	---	---	
OPRM1	4988	broad.mit.edu	37	6	154335718	154335718	+	Intron	DEL	A	-	-	rs66628608		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154335718delA	uc011efe.1	+						OPRM1_uc011efb.1_Intron|OPRM1_uc011efc.1_Intron|OPRM1_uc011efd.1_Intron	NM_001145279	NP_001138751	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1H						behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	GAATTTAGATAAAAAAAAAAG	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	154927724	154927725	+	IGR	DEL	TC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154927724_154927725delTC								CNKSR3 (95971 upstream) : RBM16 (126787 downstream)																							CATCCTCTTTTCTCTCTGTCAT	0.559													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	156583896	156583897	+	IGR	INS	-	C	C	rs145258606	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:156583896_156583897insC								MIR1202 (315883 upstream) : ARID1B (515189 downstream)																							ATTTCTAATCTCAGAAAGCCTA	0.386													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	164609306	164609306	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:164609306delG								QKI (614414 upstream) : None (None downstream)																							GGATTCCCATGGGAAGACCCA	0.448													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	164841992	164841992	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:164841992delT								QKI (847100 upstream) : C6orf118 (851163 downstream)																							actgagtgtatttttttttgt	0.035													4	3	---	---	---	---	
C6orf176	90632	broad.mit.edu	37	6	166396691	166396692	+	Intron	DEL	TT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:166396691_166396692delTT	uc011egl.1	-						uc003qup.1_Intron|C6orf176_uc003quq.3_Intron|C6orf176_uc003qur.2_Intron	NR_026861				Homo sapiens cDNA FLJ76352 complete cds.												0						GCCGGATCTATTAAGGTCAGGG	0.376													4	2	---	---	---	---	
SMOC2	64094	broad.mit.edu	37	6	168951313	168951313	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168951313delG	uc003qws.1	+						SMOC2_uc003qwr.1_Intron	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2						signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		TTAGCTGTGTGGCATCTTCTT	0.547													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	169805725	169805725	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:169805725delA								THBS2 (151588 upstream) : WDR27 (51582 downstream)																							GCCAAGAACTAAAACTGGGGC	0.428													4	2	---	---	---	---	
ADAP1	11033	broad.mit.edu	37	7	945232	945232	+	Intron	DEL	A	-	-	rs143359127	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:945232delA	uc003sjo.3	-						ADAP1_uc003sjm.3_5'Flank|ADAP1_uc011jvs.1_Intron|ADAP1_uc003sjn.3_Intron|ADAP1_uc010ksc.2_Intron	NM_006869	NP_006860	O75689	ADAP1_HUMAN	centaurin, alpha 1						cell surface receptor linked signaling pathway|regulation of ARF GTPase activity	cytoplasm|nucleus|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|protein binding|zinc ion binding			upper_aerodigestive_tract(1)	1						aggagaaaggagaaaggagaa	0.000													4	4	---	---	---	---	
SDK1	221935	broad.mit.edu	37	7	4147765	4147765	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4147765delC	uc003smx.2	+						SDK1_uc010kso.2_Intron	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor						cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TCTCTTTTTGCCCATCAGGAT	0.567													4	2	---	---	---	---	
NXPH1	30010	broad.mit.edu	37	7	8571216	8571216	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:8571216delT	uc003srv.2	+						NXPH1_uc011jxh.1_Intron	NM_152745	NP_689958	P58417	NXPH1_HUMAN	neurexophilin 1 precursor							extracellular region				ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0628)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		ctgatgagcatttttttgctt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	9539395	9539397	+	IGR	DEL	TGG	-	-	rs112246666		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:9539395_9539397delTGG								NXPH1 (746803 upstream) : PER4 (134503 downstream)																							gcacactagttggaccacaaggc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	10420185	10420185	+	IGR	DEL	A	-	-	rs76347627		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:10420185delA								PER4 (744738 upstream) : NDUFA4 (552630 downstream)																							aattggaggtaaaaaaaaaga	0.000													4	2	---	---	---	---	
PHF14	9678	broad.mit.edu	37	7	11107198	11107198	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:11107198delG	uc003sry.1	+						PHF14_uc011jxi.1_Intron|PHF14_uc003srz.2_Intron|PHF14_uc011jxj.1_Intron	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2								zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		ttccactgatggattaaagga	0.000													4	2	---	---	---	---	
VWDE	221806	broad.mit.edu	37	7	12425430	12425430	+	Intron	DEL	A	-	-	rs5882358		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12425430delA	uc003ssj.2	-						VWDE_uc011jxl.1_Intron|VWDE_uc011jxm.1_Intron	NM_001135924	NP_001129396	Q8N2E2	VWDE_HUMAN	von Willebrand factor D and EGF domains							extracellular region					0						CATTAAGAGTAAAAAAATAAC	0.353													4	4	---	---	---	---	
ANKMY2	57037	broad.mit.edu	37	7	16683801	16683801	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:16683801delC	uc003sti.2	-						ANKMY2_uc010ktz.2_Intron|BZW2_uc011jxx.1_5'Flank|BZW2_uc003stl.2_5'Flank|BZW2_uc003stm.2_5'Flank|BZW2_uc003stj.2_5'Flank|BZW2_uc003stk.2_5'Flank	NM_020319	NP_064715	Q8IV38	ANKY2_HUMAN	ankyrin repeat and MYND domain containing 2							cilium	zinc ion binding			central_nervous_system(1)	1	Lung NSC(10;0.103)|all_lung(11;0.204)			UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		ttaattgaatCCCAGAGCCAT	0.279													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	25536435	25536435	+	IGR	DEL	A	-	-	rs71696956		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:25536435delA								NPVF (268330 upstream) : MIR148A (453104 downstream)																							AAACAGGAAGAAAAAAAAATG	0.378													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	28870884	28870885	+	IGR	DEL	AG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:28870884_28870885delAG								CREB5 (5375 upstream) : TRIL (122091 downstream)																							CTCAGTTGCAAGAGAGAGAGGT	0.416													4	2	---	---	---	---	
CHN2	1124	broad.mit.edu	37	7	29352039	29352039	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29352039delA	uc003szz.2	+						CHN2_uc011jzs.1_Intron|CHN2_uc010kva.2_Intron|CHN2_uc010kvb.2_Intron|CHN2_uc010kvc.2_Intron|CHN2_uc011jzt.1_Intron|CHN2_uc010kvd.2_Intron|CHN2_uc011jzu.1_Intron	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|membrane	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)	2						AACTGTAGGTAAAATGGAGAG	0.373													4	2	---	---	---	---	
CHN2	1124	broad.mit.edu	37	7	29365746	29365749	+	Intron	DEL	TTGT	-	-	rs71555797		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29365746_29365749delTTGT	uc003szz.2	+						CHN2_uc011jzs.1_Intron|CHN2_uc010kva.2_Intron|CHN2_uc010kvb.2_Intron|CHN2_uc010kvc.2_Intron|CHN2_uc011jzt.1_Intron|CHN2_uc010kvd.2_Intron|CHN2_uc011jzu.1_Intron	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|membrane	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)	2						AGAGAAATTAttgtttgtttgttt	0.034													3	3	---	---	---	---	
CHN2	1124	broad.mit.edu	37	7	29392684	29392685	+	Intron	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29392684_29392685delTG	uc003szz.2	+						CHN2_uc011jzs.1_Intron|CHN2_uc010kva.2_Intron|CHN2_uc010kvb.2_Intron|CHN2_uc010kvc.2_Intron|CHN2_uc011jzt.1_Intron|CHN2_uc010kvd.2_Intron|CHN2_uc011jzu.1_Intron	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|membrane	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)	2						ACGCACTGACTGTGTGTGTGCC	0.391													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	29838351	29838352	+	IGR	DEL	CT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29838351_29838352delCT								LOC646762 (113597 upstream) : WIPF3 (35989 downstream)																							GGGCTCTTTCCTCTCTCTCTTG	0.530													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	31024828	31024829	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31024828_31024829delTG								GHRHR (5687 upstream) : ADCYAP1R1 (67313 downstream)																							ctttctacactgtgtgtgtgtg	0.010													3	3	---	---	---	---	
BMPER	168667	broad.mit.edu	37	7	34144126	34144126	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:34144126delT	uc011kap.1	+							NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor						blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						TGTTCATGGGTTTTTTTTGGC	0.383													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	35466042	35466042	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:35466042delC								TBX20 (172800 upstream) : HERPUD2 (206230 downstream)																							TTGACTGATTCCAGGGAAGTA	0.522													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	42790051	42790051	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:42790051delT								GLI3 (513433 upstream) : C7orf25 (158823 downstream)																							GACTGCCTGATGAACTTTATC	0.373													4	2	---	---	---	---	
NUDCD3	23386	broad.mit.edu	37	7	44484966	44484966	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44484966delG	uc003tkz.2	-						NUDCD3_uc010kye.2_Intron	NM_015332	NP_056147	Q8IVD9	NUDC3_HUMAN	NudC domain containing 3												0						GGTCTTGGCAGGGCAGAGACA	0.463													4	2	---	---	---	---	
NPC1L1	29881	broad.mit.edu	37	7	44580235	44580235	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44580235delC	uc003tlb.2	-						NPC1L1_uc003tlc.2_Intron|NPC1L1_uc011kbw.1_Intron|NPC1L1_uc003tld.2_Intron	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1						cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	CCGGGCTCTGCCCACGTCAAA	0.602													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	46792621	46792621	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:46792621delA								IGFBP3 (831750 upstream) : TNS3 (522132 downstream)																							GCACAGAAAGAAAAAAAAAAC	0.348													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	46812091	46812091	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:46812091delT								IGFBP3 (851220 upstream) : TNS3 (502662 downstream)																							GTTTGGGGGATTTTTTTTTTA	0.154													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	47153148	47153148	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47153148delA								None (None upstream) : TNS3 (161605 downstream)																							tccgttttccaaaaaatgatc	0.040													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	47172890	47172890	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47172890delA								None (None upstream) : TNS3 (141863 downstream)																							accactgggcaaaagtttaag	0.000													4	2	---	---	---	---	
TNS3	64759	broad.mit.edu	37	7	47545722	47545722	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47545722delC	uc003tnv.2	-						TNS3_uc003tnw.2_Intron|TNS3_uc010kyo.1_Intron	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3							focal adhesion	protein binding			ovary(4)	4						ACCTACAGAGCCCCCATAGGC	0.532													4	2	---	---	---	---	
PKD1L1	168507	broad.mit.edu	37	7	47866322	47866322	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47866322delG	uc003tny.1	-						C7orf69_uc003toa.1_Intron|PKD1L1_uc003tob.2_Intron	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1						cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CATGATGGGAGGGGGATGGTA	0.313													4	2	---	---	---	---	
PKD1L1	168507	broad.mit.edu	37	7	47903595	47903595	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47903595delT	uc003tny.1	-							NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1						cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						ACTAGAGGGATTTTTTTTTAA	0.388													4	2	---	---	---	---	
ABCA13	154664	broad.mit.edu	37	7	48394110	48394110	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48394110delT	uc003toq.2	+						ABCA13_uc010kys.1_Intron|ABCA13_uc003tos.1_Intron	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),						transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TGGAGACATATTTTTTCACCC	0.388													4	2	---	---	---	---	
ABCA13	154664	broad.mit.edu	37	7	48428393	48428393	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48428393delT	uc003toq.2	+						ABCA13_uc010kys.1_Intron|ABCA13_uc003tos.1_Intron|ABCA13_uc010kyt.1_Intron	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),						transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TGTGtttttattttttttatt	0.289													4	2	---	---	---	---	
ABCA13	154664	broad.mit.edu	37	7	48438408	48438408	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48438408delA	uc003toq.2	+						ABCA13_uc010kys.1_Intron|ABCA13_uc003tos.1_Intron|ABCA13_uc010kyt.1_Intron	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),						transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						aagaggggacaaagcattgat	0.114													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	48704193	48704193	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48704193delG								ABCA13 (17102 upstream) : CDC14C (259964 downstream)																							actcagaactggattgattaa	0.109													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	49513185	49513185	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:49513185delC								CDC14C (546136 upstream) : VWC2 (300072 downstream)																							taaagaacttcccaagactgg	0.104													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	49550359	49550359	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:49550359delC								CDC14C (583310 upstream) : VWC2 (262898 downstream)																							taacagaatgccacagattgg	0.000													4	2	---	---	---	---	
ZPBP	11055	broad.mit.edu	37	7	50013268	50013268	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:50013268delA	uc003tou.2	-						ZPBP_uc011kci.1_Intron|ZPBP_uc010kyw.2_Intron	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1						binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					cggctagtgtaaaaaacaaac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	52893071	52893072	+	IGR	INS	-	T	T	rs144497273	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:52893071_52893072insT								None (None upstream) : POM121L12 (210277 downstream)																							CTGTCAGGCTCTTTTTAGGTGA	0.287													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	53169357	53169358	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:53169357_53169358insT								POM121L12 (64740 upstream) : None (None downstream)																							ttgtattctgcttttttttttc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	54005034	54005034	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:54005034delG								POM121L12 (900417 upstream) : HPVC1 (263883 downstream)																							acaagaaggtgggtctatgtc	0.075													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	54960832	54960832	+	IGR	DEL	T	-	-	rs79896669		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:54960832delT								SEC61G (133893 upstream) : EGFR (125893 downstream)																							AACATGGGTCTTTTTTTTTTC	0.229													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	55413593	55413593	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55413593delT								EGFR (138563 upstream) : LANCL2 (19548 downstream)																							ataattttgatttgcatttat	0.010													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	56837008	56837008	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:56837008delA								DKFZp434L192 (272031 upstream) : ZNF479 (350320 downstream)																							gataaagtgcaaaaaaaaaaa	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	56928815	56928815	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:56928815delA								DKFZp434L192 (363838 upstream) : ZNF479 (258513 downstream)																							AGTGAAATTTaaaaaaaaaaa	0.318													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	61754578	61754578	+	IGR	DEL	C	-	-	rs36188794		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61754578delC								None (None upstream) : LOC643955 (997094 downstream)																							caaaaggaaacgtcaaatgga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	61832290	61832291	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61832290_61832291insA								None (None upstream) : LOC643955 (919381 downstream)																							ccatcaaaagcaaagatacaat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	62827694	62827695	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:62827694_62827695insT								LOC100287704 (15543 upstream) : ZNF727 (678126 downstream)																							CTGCAGAATACTTTTTTTTTTA	0.356													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	63364463	63364463	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:63364463delT	uc003tsv.2	+											Homo sapiens cDNA clone IMAGE:5296015.																		tgagattctattttttttttg	0.020													4	3	---	---	---	---	
INTS4L1	285905	broad.mit.edu	37	7	64692641	64692641	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:64692641delG	uc003ttw.2	+							NR_027393				Homo sapiens cDNA FLJ25037 fis, clone CBL03066.												0						ctggtaaggtgggacaactgc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	68565321	68565321	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:68565321delT								None (None upstream) : AUTS2 (498584 downstream)																							cactcctgccttttttttttt	0.000													4	3	---	---	---	---	
AUTS2	26053	broad.mit.edu	37	7	69749509	69749509	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:69749509delA	uc003tvw.3	+						AUTS2_uc003tvv.3_Intron|AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1											ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		ttgattggttaaaaaaaaaat	0.040													3	3	---	---	---	---	
AUTS2	26053	broad.mit.edu	37	7	69767893	69767894	+	Intron	DEL	TT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:69767893_69767894delTT	uc003tvw.3	+						AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1											ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		AAAGATCTTCTTTTTTTTTTTT	0.396													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	70374533	70374534	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70374533_70374534insC								AUTS2 (116649 upstream) : WBSCR17 (223255 downstream)																							atgcaaaatttcccccacaaag	0.000													4	2	---	---	---	---	
TYW1B	441250	broad.mit.edu	37	7	72197839	72197839	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72197839delA	uc011kej.1	-						TYW1B_uc011keh.1_Intron|TYW1B_uc011kei.1_Intron|TYW1B_uc011kek.1_Intron	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform						tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						actaaccaagaaaaaaaaaga	0.000													4	2	---	---	---	---	
FKBP6	8468	broad.mit.edu	37	7	72473363	72473363	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72473363delG	uc003twz.2	+						STAG3L3_uc011kem.1_Intron|STAG3L3_uc003txd.3_Intron|STAG3L3_uc010laq.1_Intron	NM_001135211	NP_001128683	O75344	FKBP6_HUMAN	FK506 binding protein 6 isoform b						protein folding	membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				aaaaaaaaaagaaCATGCTCT	0.179													6	3	---	---	---	---	
YWHAG	7532	broad.mit.edu	37	7	75979375	75979375	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75979375delA	uc011kgj.1	-							NM_012479	NP_036611	P61981	1433G_HUMAN	tyrosine 3-monooxygenase/tryptophan						G2/M transition of mitotic cell cycle|regulation of neuron differentiation|regulation of signal transduction|regulation of synaptic plasticity	cytosol	insulin-like growth factor receptor binding|protein kinase C binding|protein kinase C inhibitor activity			ovary(1)|lung(1)	2						aaatacagataaaagaccgat	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	76397785	76397785	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76397785delA								POMZP3 (141165 upstream) : PMS2L11 (212354 downstream)																							acaaacaaacaaaaaaaactt	0.000													4	2	---	---	---	---	
PTPN12	5782	broad.mit.edu	37	7	77165201	77165202	+	5'Flank	INS	-	ATTCG	ATTCG	rs112261084		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77165201_77165202insATTCG	uc003ugh.2	+						PTPN12_uc011kgp.1_5'Flank|PTPN12_uc011kgq.1_5'Flank	NM_002835	NP_002826	Q05209	PTN12_HUMAN	protein tyrosine phosphatase, non-receptor type							soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3						AAATAACTTCTAGTTACGGCTC	0.381													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	79347203	79347204	+	IGR	INS	-	A	A	rs148357476	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:79347203_79347204insA								MAGI2 (264313 upstream) : GNAI1 (416936 downstream)																							TTTggtgtgagaaaaaaaaact	0.153													4	5	---	---	---	---	
HGF	3082	broad.mit.edu	37	7	81355365	81355365	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:81355365delC	uc003uhl.2	-						HGF_uc003uhm.2_Intron	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1						epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						ATGTAAATTGCCGGAGTTCTT	0.378													150	89	---	---	---	---	
SEMA3E	9723	broad.mit.edu	37	7	83170427	83170427	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:83170427delG	uc003uhy.1	-							NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor						axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				GTGAGAGTCTGGGGAGGGAAG	0.428													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	83929479	83929480	+	IGR	INS	-	A	A	rs143705526	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:83929479_83929480insA								SEMA3A (105262 upstream) : SEMA3D (695394 downstream)																							aaataaaatagaaaaaaaaaca	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	83931421	83931421	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:83931421delA								SEMA3A (107204 upstream) : SEMA3D (693453 downstream)																							attcagtaataaaaaaaatca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	86211886	86211889	+	IGR	DEL	TGTT	-	-	rs150430388		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86211886_86211889delTGTT								None (None upstream) : GRM3 (61341 downstream)																							AAACAAAATCTGTTTGATTTAAAA	0.275													4	2	---	---	---	---	
KIAA1324L	222223	broad.mit.edu	37	7	86688065	86688065	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86688065delT	uc011kha.1	-							NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1							integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					TACATACTCCTTTTTTTTCCC	0.418													4	3	---	---	---	---	
TP53TG1	11257	broad.mit.edu	37	7	86959159	86959159	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86959159delC	uc003uir.3	-						TP53TG1_uc003uip.3_Intron|TP53TG1_uc003uiq.3_Intron	NR_015381				Homo sapiens mRNA for P53TG1-A, complete cds.												0						aagaatggaaccttgggccat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	89376896	89376896	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:89376896delT								ZNF804B (410552 upstream) : DPY19L2P4 (371818 downstream)																							AAAACTCCAGTTACCCATCGA	0.338													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	89733921	89733922	+	IGR	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:89733921_89733922delCA								ZNF804B (767577 upstream) : DPY19L2P4 (14792 downstream)																							GTTTAAAATGcacacacacaca	0.248													1	6	---	---	---	---	
CDK14	5218	broad.mit.edu	37	7	90298667	90298667	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:90298667delC	uc003uky.2	+						CDK14_uc003ukt.1_Intron|CDK14_uc003ukv.1_Intron|CDK14_uc003uku.1_Intron|CDK14_uc003ukx.1_Intron	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1						cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						AAACTCCCTACCCACAGTTTA	0.289													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	93852032	93852032	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:93852032delA								BET1 (218342 upstream) : COL1A2 (171841 downstream)																							TATTTCATTTAAAAAAAAAGT	0.259													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	94365874	94365874	+	IGR	DEL	C	-	-	rs10224898	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94365874delC								PEG10 (66870 upstream) : PPP1R9A (171075 downstream)																							AACAAaaaaacaaaaagcaaa	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	94453357	94453357	+	IGR	DEL	A	-	-	rs72282526		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94453357delA								PEG10 (154353 upstream) : PPP1R9A (83592 downstream)																							tccagaaatgaaacaattcat	0.000													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	95965565	95965565	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95965565delC								SLC25A13 (14106 upstream) : SHFM1 (336672 downstream)																							actcttagatcccagtttcct	0.060													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	97081536	97081536	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97081536delC								ACN9 (270463 upstream) : TAC1 (279735 downstream)																							ATACCCCAttctttttttttt	0.179													4	2	---	---	---	---	
SMURF1	57154	broad.mit.edu	37	7	98658021	98658021	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98658021delG	uc003upu.1	-						SMURF1_uc003upv.1_Intron|SMURF1_uc003upt.2_Intron	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform						BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			aaaaaaaaaagaaaaaagaaa	0.144													4	2	---	---	---	---	
STAG3	10734	broad.mit.edu	37	7	99779525	99779525	+	Intron	DEL	A	-	-	rs35532527		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99779525delA	uc003utx.1	+						STAG3_uc010lgs.1_Intron|STAG3_uc011kjk.1_Intron	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3						chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					actccgtctcaaaaaaaaaaa	0.154													7	4	---	---	---	---	
CUX1	1523	broad.mit.edu	37	7	101859967	101859968	+	Intron	INS	-	CA	CA	rs140023316	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101859967_101859968insCA	uc003uyx.3	+						CUX1_uc003uys.3_Intron|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a						negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						acacactcccccacacacactc	0.000													7	4	---	---	---	---	
FBXL13	222235	broad.mit.edu	37	7	102532113	102532113	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102532113delA	uc003vaq.2	-						FBXL13_uc010liq.1_Intron|FBXL13_uc010lir.1_Intron|FBXL13_uc003var.2_Intron|FBXL13_uc003vas.2_Intron	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform												0						ACCAAACATTAAAAAAAAATT	0.378													4	2	---	---	---	---	
RELN	5649	broad.mit.edu	37	7	103277170	103277170	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103277170delA	uc003vca.2	-						RELN_uc010liz.2_Intron	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a						axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CAATTTATCTAAAATACATCT	0.284													4	2	---	---	---	---	
RELN	5649	broad.mit.edu	37	7	103314413	103314413	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103314413delT	uc003vca.2	-						RELN_uc010liz.2_Intron	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a						axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		Cttcttctcctttttttaatc	0.090													4	2	---	---	---	---	
RELN	5649	broad.mit.edu	37	7	103368369	103368372	+	Intron	DEL	AATT	-	-	rs56185917		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103368369_103368372delAATT	uc003vca.2	-						RELN_uc010liz.2_Intron	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a						axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TTTATTACTGAATTATTTATTTTT	0.270													5	3	---	---	---	---	
LHFPL3	375612	broad.mit.edu	37	7	104312049	104312049	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104312049delA	uc003vce.2	+						LHFPL3_uc003vcf.2_Intron	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3							integral to membrane					0						AAATACAAggaaaaaatacag	0.129													4	2	---	---	---	---	
LHFPL3	375612	broad.mit.edu	37	7	104335887	104335887	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104335887delT	uc003vce.2	+						LHFPL3_uc003vcf.2_Intron	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3							integral to membrane					0						GTATATAACCTTTTTTGTTGG	0.333													4	2	---	---	---	---	
RINT1	60561	broad.mit.edu	37	7	105196517	105196517	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:105196517delT	uc003vda.1	+						RINT1_uc010ljj.1_Intron	NM_021930	NP_068749	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1						cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4						actcaacttcttttttttttt	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	106260370	106260371	+	Intron	INS	-	C	C	rs149605531	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106260370_106260371insC	uc003vds.2	-											Homo sapiens full length insert cDNA clone ZC44D09.																		taacctctgtgccccctcatcc	0.000													3	3	---	---	---	---	
COG5	10466	broad.mit.edu	37	7	106924377	106924377	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106924377delT	uc003ved.2	-						COG5_uc003vec.2_Intron|COG5_uc003vee.2_Intron	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform						intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						CATAGTAACCttttttttttt	0.114													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	108518523	108518523	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108518523delG								DNAJB9 (303231 upstream) : C7orf66 (5517 downstream)																							agtcccacgagggggtcagga	0.129													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	110204575	110204575	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:110204575delT								EIF3IP1 (604305 upstream) : IMMP2L (98535 downstream)																							TGACAGTCTATTTTTTTTTCC	0.358													3	3	---	---	---	---	
DOCK4	9732	broad.mit.edu	37	7	111396603	111396604	+	Intron	INS	-	C	C	rs143494700	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111396603_111396604insC	uc003vfx.2	-						DOCK4_uc011kml.1_Intron|DOCK4_uc011kmm.1_Intron|DOCK4_uc003vfw.2_Intron|DOCK4_uc003vfy.2_Intron	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4						cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				GTATTTTAGAGCCAGGGCTTCC	0.347													3	10	---	---	---	---	
DOCK4	9732	broad.mit.edu	37	7	111830731	111830731	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111830731delA	uc003vfx.2	-						DOCK4_uc003vfy.2_Intron|DOCK4_uc003vga.1_Intron|DOCK4_uc010ljt.1_Intron	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4						cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				ctgcaaaaacaaaaaaaaaaa	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	113409091	113409094	+	IGR	DEL	TTAA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113409091_113409094delTTAA								LOC401397 (650454 upstream) : PPP1R3A (107788 downstream)																							agtctcatacttaattgatagttt	0.000													3	3	---	---	---	---	
FOXP2	93986	broad.mit.edu	37	7	113802739	113802739	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113802739delT	uc003vgu.2	+						FOXP2_uc003vgt.1_Intron			O15409	FOXP2_HUMAN	Homo sapiens full length insert cDNA clone YX52E07.						camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						TTTGTAGTCATTTAGATTTTG	0.303													4	2	---	---	---	---	
FOXP2	93986	broad.mit.edu	37	7	114282777	114282777	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:114282777delA	uc003vhb.2	+						FOXP2_uc003vgu.2_Intron|FOXP2_uc003vgz.2_Intron|FOXP2_uc003vha.2_Intron|FOXP2_uc011kmu.1_Intron|FOXP2_uc011kmv.1_Intron|FOXP2_uc010ljz.1_Intron|FOXP2_uc003vgx.2_Intron|FOXP2_uc003vhd.2_Intron|FOXP2_uc003vhc.2_Intron	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I						camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						GAGCAAGGACAAAATGTATAG	0.189													12	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	116296211	116296211	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116296211delA								CAV1 (94981 upstream) : MET (16248 downstream)																							AGTGGTATATAACCAAGATTC	0.224													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	117685119	117685119	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117685119delA								CTTNBP2 (171558 upstream) : NAA38 (138967 downstream)																							taagtaagccaaaaaaaaaat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	119867189	119867190	+	IGR	DEL	CT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:119867189_119867190delCT								None (None upstream) : KCND2 (46532 downstream)																							cttctgagaactctctctctct	0.000													4	3	---	---	---	---	
KCND2	3751	broad.mit.edu	37	7	120009186	120009187	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:120009186_120009187insT	uc003vjj.1	+							NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related						regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					GTGGGTTGAGATTTTTTTTTTT	0.277													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	121210942	121210943	+	IGR	DEL	GG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121210942_121210943delGG								FAM3C (174520 upstream) : PTPRZ1 (302216 downstream)																							cagtgagttaggaagaactcag	0.000													3	3	---	---	---	---	
CADPS2	93664	broad.mit.edu	37	7	122398374	122398374	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:122398374delA	uc010lkp.2	-						CADPS2_uc010lkq.2_Intron	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2						exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						GTTCAGGCTGAAAATAAAGCA	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	122962874	122962875	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:122962874_122962875insT								SLC13A1 (122849 upstream) : IQUB (129363 downstream)																							agttcaaaatatttttttcaac	0.000													4	2	---	---	---	---	
GRM8	2918	broad.mit.edu	37	7	126389424	126389425	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126389424_126389425insA	uc003vlr.2	-						GRM8_uc003vls.2_Intron|GRM8_uc011kof.1_Intron|GRM8_uc003vlt.2_Intron|GRM8_uc010lkz.1_Intron|GRM8_uc003vlu.1_Intron	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a						negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	aagaaacaatgaaaaaaaaatt	0.000										HNSCC(24;0.065)			4	2	---	---	---	---	
SND1	27044	broad.mit.edu	37	7	127306648	127306648	+	Intron	DEL	A	-	-	rs77386636		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127306648delA	uc003vmi.2	+							NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1						gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						TGCCCCCCTCAAAAAAAAAAA	0.358													5	4	---	---	---	---	
SND1	27044	broad.mit.edu	37	7	127347966	127347966	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127347966delT	uc003vmi.2	+							NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1						gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						TTAGGACTTCTTTTTTATCTG	0.224													4	2	---	---	---	---	
TNPO3	23534	broad.mit.edu	37	7	128683964	128683964	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128683964delA	uc003vol.1	-						TNPO3_uc003vom.1_Intron|TNPO3_uc010lly.1_Intron|TNPO3_uc010llz.1_Intron	NM_012470	NP_036602	Q9Y5L0	TNPO3_HUMAN	transportin 3						splicing factor protein import into nucleus	cytoplasm|nucleus	protein binding|receptor activity			ovary(2)|skin(2)|lung(1)	5						CAAAATACAGAAAATTTATCT	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	128699608	128699608	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128699608delA								TPI1P2 (2315 upstream) : LOC407835 (66717 downstream)																							CCTTAGTCTTAAAAAAAAAAA	0.159													5	3	---	---	---	---	
UBE2H	7328	broad.mit.edu	37	7	129560547	129560547	+	Intron	DEL	A	-	-	rs35207398		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129560547delA	uc003vpf.1	-						UBE2H_uc003vpg.1_Intron	NM_003344	NP_003335	P62256	UBE2H_HUMAN	ubiquitin-conjugating enzyme E2H isoform 1						protein K11-linked ubiquitination|protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process		ATP binding|ubiquitin-protein ligase activity			skin(1)	1	Melanoma(18;0.0435)					TTATTACCTCAAAAAAAAGTT	0.358													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	130010174	130010175	+	5'Flank	INS	-	T	T	rs111517155		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130010174_130010175insT	uc003vpv.1	-											Homo sapiens cDNA FLJ40591 fis, clone THYMU2010161.																		ccacaggagacttttttttttt	0.015													4	3	---	---	---	---	
FLJ43663	378805	broad.mit.edu	37	7	130791400	130791400	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130791400delA	uc011kpk.1	-						FLJ43663_uc003vqo.1_Intron|FLJ43663_uc003vqp.2_Intron|FLJ43663_uc003vqq.2_Intron	NR_024153				Homo sapiens cDNA FLJ43663 fis, clone SYNOV4005989.												0						AGACACAGGGAAAAAAAAAAA	0.483													4	3	---	---	---	---	
PLXNA4	91584	broad.mit.edu	37	7	131939854	131939854	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:131939854delC	uc003vra.3	-							NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1							integral to membrane|intracellular|plasma membrane				ovary(1)	1						AATGCCATTGCCTATGACAGA	0.532													4	2	---	---	---	---	
PLXNA4	91584	broad.mit.edu	37	7	132222260	132222261	+	Intron	DEL	TA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132222260_132222261delTA	uc003vra.3	-						PLXNA4_uc003vrc.2_Intron|PLXNA4_uc003vrb.2_Intron	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1							integral to membrane|intracellular|plasma membrane				ovary(1)	1						CCCAAGTTCCTATTTCAAAAAA	0.446													4	2	---	---	---	---	
AGBL3	340351	broad.mit.edu	37	7	134819417	134819418	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134819417_134819418insA	uc011kpw.1	+						uc003vsg.2_Intron|C7orf49_uc003vsh.2_Intron	NM_178563	NP_848658	Q8NEM8	CBPC3_HUMAN	carboxypeptidase 3, cytosolic						proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding				0						GGAATAGTGCTAAAAAAAAAAT	0.307													6	3	---	---	---	---	
TMEM140	55281	broad.mit.edu	37	7	134833640	134833640	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134833640delT	uc003vsi.2	+						uc003vsg.2_5'Flank|C7orf49_uc003vsh.2_Intron	NM_018295	NP_060765	Q9NV12	TM140_HUMAN	transmembrane protein 140							integral to membrane				large_intestine(1)	1						TTTTAAGAGATTTTTTTTAAT	0.358													4	2	---	---	---	---	
CNOT4	4850	broad.mit.edu	37	7	135120766	135120766	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:135120766delT	uc003vsv.1	-						CNOT4_uc003vss.2_Intron|CNOT4_uc011kpz.1_Intron|CNOT4_uc003vst.2_Intron|CNOT4_uc003vsu.1_Intron|CNOT4_uc011kpy.1_Intron	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4						nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						CTCCCATTCCTTTTTTTTTTT	0.408													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	138905997	138905998	+	IGR	DEL	TT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138905997_138905998delTT								TTC26 (31447 upstream) : UBN2 (10233 downstream)																							ACACCAAGAGTTTTTTTTTTTT	0.257													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	141965519	141965519	+	IGR	DEL	T	-	-	rs112344737		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141965519delT								TRYX3 (7641 upstream) : TRY6 (491800 downstream)																							CAGCTACTCATTTTTTTTTTT	0.353													4	2	---	---	---	---	
EPHB6	2051	broad.mit.edu	37	7	142565205	142565206	+	Intron	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142565205_142565206delGT	uc011kst.1	+						EPHB6_uc011ksu.1_Intron|EPHB6_uc003wbs.2_Intron|EPHB6_uc003wbt.2_Intron|EPHB6_uc003wbu.2_Intron|EPHB6_uc003wbv.2_5'UTR	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor							extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					ggctgtgggcgtgtgtgtgtgt	0.252													4	2	---	---	---	---	
CNTNAP2	26047	broad.mit.edu	37	7	146552575	146552575	+	Intron	DEL	G	-	-	rs62481427	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:146552575delG	uc003weu.1	+							NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor						behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			atttgaaatagatacacagca	0.000										HNSCC(39;0.1)			4	2	---	---	---	---	
CNTNAP2	26047	broad.mit.edu	37	7	147934790	147934790	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:147934790delC	uc003weu.1	+							NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor						behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GAGGCACATGCAGAGTGGTGT	0.368										HNSCC(39;0.1)			4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	150053644	150053644	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150053644delA								RARRES2 (14881 upstream) : REPIN1 (11717 downstream)																							accctgtctcaaaaaaaaaaa	0.169													4	2	---	---	---	---	
ABP1	26	broad.mit.edu	37	7	150557265	150557265	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150557265delA	uc003why.1	+						ABP1_uc003whz.1_Intron|ABP1_uc003wia.1_Intron	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor						amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	aaactccatcaaaaaaaaaga	0.070													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	150980424	150980424	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150980424delA								SMARCD3 (6193 upstream) : NUB1 (58434 downstream)																							aaaagcattcaaaaaaattca	0.000													4	2	---	---	---	---	
RHEB	6009	broad.mit.edu	37	7	151204493	151204494	+	Intron	INS	-	T	T	rs145095584	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151204493_151204494insT	uc003wkh.1	-							NM_005614	NP_005605	Q15382	RHEB_HUMAN	Ras homolog enriched in brain precursor						cell cycle arrest|insulin receptor signaling pathway|positive regulation of TOR signaling cascade|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|metal ion binding|protein binding			large_intestine(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.00306)	UCEC - Uterine corpus endometrioid carcinoma (81;0.174)		ACACATATATATAGTGTCACTA	0.406													4	2	---	---	---	---	
MLL3	58508	broad.mit.edu	37	7	151981593	151981593	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151981593delT	uc003wla.2	-							NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3						intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		caagcaaagattttttaataa	0.000			N		medulloblastoma								6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	152843611	152843612	+	IGR	INS	-	T	T	rs141682645	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152843611_152843612insT								ACTR3B (291148 upstream) : DPP6 (740807 downstream)																							tgagctttgcctgcagggatca	0.178													2	4	---	---	---	---	
DPP6	1804	broad.mit.edu	37	7	154476006	154476006	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:154476006delT	uc003wlk.2	+						DPP6_uc003wli.2_Intron|DPP6_uc003wlm.2_Intron|DPP6_uc011kvq.1_Intron	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1						cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			cactctctgcttttgtgacct	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	155120316	155120317	+	IGR	INS	-	CT	CT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:155120316_155120317insCT								INSIG1 (18374 upstream) : EN2 (130507 downstream)																							CTCATCTCTCCCTCCCCAAAGA	0.564													4	3	---	---	---	---	
DNAJB6	10049	broad.mit.edu	37	7	157173694	157173694	+	Intron	DEL	T	-	-	rs10715969		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:157173694delT	uc003wnk.2	+						DNAJB6_uc003wnj.2_Intron|DNAJB6_uc003wnl.2_Intron|DNAJB6_uc011kvy.1_Intron|DNAJB6_uc011kvz.1_Intron|DNAJB6_uc010lqt.2_Intron|uc003wnm.1_RNA	NM_058246	NP_490647	O75190	DNJB6_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 6						intermediate filament organization|negative regulation of caspase activity|protein folding|response to unfolded protein	nucleus|perinuclear region of cytoplasm	ATPase activator activity|chaperone binding|heat shock protein binding|unfolded protein binding			ovary(2)	2	all_neural(206;0.181)	all_epithelial(9;0.000606)|all_hematologic(28;0.00287)|Acute lymphoblastic leukemia(9;0.0647)|Ovarian(593;0.196)	OV - Ovarian serous cystadenocarcinoma(82;0.00399)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)		AGTCACTGCAttttttttttt	0.269													6	3	---	---	---	---	
PTPRN2	5799	broad.mit.edu	37	7	157940053	157940053	+	Intron	DEL	T	-	-	rs112062837		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:157940053delT	uc003wno.2	-						PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		GCCACGTATCTTTCCCCCTCA	0.562													4	2	---	---	---	---	
PTPRN2	5799	broad.mit.edu	37	7	158213122	158213122	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158213122delG	uc003wno.2	-						PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		TCCTGGGCTTGGGGTACCTGG	0.498													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	1197072	1197073	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1197072_1197073insA								ERICH1 (515846 upstream) : DLGAP2 (252496 downstream)																							TCAGTGTGTGGAGTGATGGTCC	0.569													6	4	---	---	---	---	
ARHGEF10	9639	broad.mit.edu	37	8	1900230	1900230	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1900230delG	uc003wpr.2	+						ARHGEF10_uc003wps.2_Intron|ARHGEF10_uc010lre.2_Intron	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10						centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		tcagatccttggctgtaaagc	0.199													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	2201982	2201982	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2201982delT								MYOM2 (108603 upstream) : CSMD1 (590894 downstream)																							GCACAAtttgttttttttttt	0.184													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	2582525	2582525	+	Intron	DEL	T	-	-	rs36009803		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2582525delT	uc003wqb.1	-											Homo sapiens cDNA FLJ46912 fis, clone SKNMC2000583.																		TCTTTATGTATTTGCCATGTA	0.398													4	2	---	---	---	---	
CSMD1	64478	broad.mit.edu	37	8	2837837	2837838	+	Intron	INS	-	CTC	CTC	rs146468031	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2837837_2837838insCTC	uc011kwk.1	-						CSMD1_uc011kwj.1_Intron|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor							integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TGCCACCATTTctcctcctcct	0.252													4	3	---	---	---	---	
CSMD1	64478	broad.mit.edu	37	8	3790461	3790461	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3790461delA	uc011kwk.1	-							NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor							integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		AATCTTTTTTAAAAGTGTATG	0.204													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	5511515	5511518	+	IGR	DEL	ACAA	-	-	rs147372188		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:5511515_5511518delACAA								CSMD1 (659187 upstream) : MCPH1 (752603 downstream)																							AGCTAACACCACAAACAGTTTCCC	0.441													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	5780831	5780831	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:5780831delA								CSMD1 (928503 upstream) : MCPH1 (483290 downstream)																							agacaggaagaaaaaaaaaag	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	5944450	5944450	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:5944450delT								None (None upstream) : MCPH1 (319671 downstream)																							aagtctttaatccatcttgaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	8052964	8052964	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:8052964delA								MIR548I3 (106353 upstream) : FLJ10661 (33128 downstream)																							ataagtaaacaaaaaaaaagc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	8587350	8587350	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:8587350delA								CLDN23 (25734 upstream) : MFHAS1 (54649 downstream)																							GAAAGTTGATAAAAAAAACAT	0.388													4	2	---	---	---	---	
TNKS	8658	broad.mit.edu	37	8	9439822	9439823	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9439822_9439823insT	uc003wss.2	+						TNKS_uc011kwv.1_Intron|TNKS_uc011kww.1_Intron	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related						mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GGGAAGCCTTGTTTTTTTTTTG	0.322													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	9764823	9764824	+	IGR	DEL	GA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9764823_9764824delGA								MIR124-1 (3841 upstream) : MSRA (147006 downstream)																							gggagagagggagagagagaga	0.450													5	3	---	---	---	---	
MSRA	4482	broad.mit.edu	37	8	10036197	10036197	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10036197delT	uc003wsx.2	+						MSRA_uc011kwx.1_Intron|MSRA_uc011kwy.1_Intron|MSRA_uc003wsz.2_Intron|MSRA_uc003wsy.2_Intron	NM_012331	NP_036463	Q9UJ68	MSRA_HUMAN	methionine sulfoxide reductase A isoform a						methionine metabolic process|protein modification process|response to oxidative stress	mitochondrion|nucleus	peptide-methionine-(S)-S-oxide reductase activity				0		Myeloproliferative disorder(644;0.178)			L-Methionine(DB00134)	GTTTTGTTTCTTCAGTTGAAA	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	11070844	11070844	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11070844delG								XKR6 (11969 upstream) : MTMR9 (71156 downstream)																							tagtgcGGCAGGTAAATAGAA	0.144													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	11120919	11120920	+	IGR	DEL	AA	-	-	rs145540484		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11120919_11120920delAA								XKR6 (62044 upstream) : MTMR9 (21080 downstream)																							cgttttttggaaaagtttgtga	0.000													3	3	---	---	---	---	
DLC1	10395	broad.mit.edu	37	8	13309210	13309210	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:13309210delT	uc003wwm.2	-						DLC1_uc003wwn.2_Intron|DLC1_uc011kxy.1_Intron	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1						actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						gatcacattctttttttaaat	0.000													4	2	---	---	---	---	
SGCZ	137868	broad.mit.edu	37	8	14722053	14722053	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:14722053delT	uc003wwq.2	-							NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta						cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		TGTGTCCCGGTGACTTGTATT	0.289													4	2	---	---	---	---	
MTMR7	9108	broad.mit.edu	37	8	17162256	17162257	+	Intron	DEL	GT	-	-	rs72221681		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17162256_17162257delGT	uc003wxm.2	-						MTMR7_uc003wxn.2_Intron|MTMR7_uc011kya.1_Intron|MTMR7_uc011kyb.1_Intron	NM_004686	NP_004677	Q9Y216	MTMR7_HUMAN	myotubularin related protein 7								protein tyrosine phosphatase activity			skin(1)	1				Colorectal(111;0.112)		TGTTCGATTCgtgtgtgtgtgt	0.282													5	4	---	---	---	---	
PSD3	23362	broad.mit.edu	37	8	18546072	18546072	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18546072delA	uc003wza.2	-						PSD3_uc003wyy.2_Intron|PSD3_uc003wyz.2_Intron	NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide						regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		cttttgctacaataatgatgc	0.090													4	2	---	---	---	---	
PSD3	23362	broad.mit.edu	37	8	18697250	18697252	+	Intron	DEL	CTC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18697250_18697252delCTC	uc003wza.2	-							NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide						regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		GATCAGAGTTCTCCTCCAAGTAT	0.468													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	19126442	19126442	+	IGR	DEL	T	-	-	rs11995250		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:19126442delT								PSD3 (255246 upstream) : SH2D4A (44765 downstream)																							TTTCCTCAGGTGGGggctgga	0.204													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	20161760	20161760	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:20161760delT								LZTS1 (48957 upstream) : None (None downstream)																							CCTGGCCCCCTTTCTCCGATT	0.542													4	2	---	---	---	---	
DOK2	9046	broad.mit.edu	37	8	21697145	21697145	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21697145delT	uc003wzx.1	-							NM_003974	NP_003965	O60496	DOK2_HUMAN	docking protein 2						blood coagulation|leukocyte migration	cytosol	identical protein binding|insulin receptor binding				0				Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		GAAGACTGTCTTTTTTTTTTC	0.274													4	2	---	---	---	---	
DOK2	9046	broad.mit.edu	37	8	21771744	21771745	+	5'Flank	DEL	AG	-	-	rs5890010		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21771744_21771745delAG	uc003wzy.1	-						DOK2_uc003wzx.1_5'Flank|DOK2_uc003wzz.1_5'Flank|DOK2_uc010lth.1_5'Flank	NM_003974	NP_003965	O60496	DOK2_HUMAN	docking protein 2						blood coagulation|leukocyte migration	cytosol	identical protein binding|insulin receptor binding				0				Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		ACACACACACagagagagagag	0.416													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	23607535	23607538	+	IGR	DEL	GAGT	-	-	rs139980674		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:23607535_23607538delGAGT								NKX2-6 (43613 upstream) : STC1 (91896 downstream)																							AGATAGGTTAGAGTGAGTATCCTC	0.255													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	24490513	24490514	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24490513_24490514insC								ADAM7 (106032 upstream) : NEFM (280760 downstream)																							tcccagctactggggaggctga	0.020													4	2	---	---	---	---	
PPP2R2A	5520	broad.mit.edu	37	8	26116767	26116768	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26116767_26116768insT	uc003xek.2	+							NM_002717	NP_002708	P63151	2ABA_HUMAN	alpha isoform of regulatory subunit B55, protein						protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)		AAATACATTTGTTTTTCttaac	0.183													4	2	---	---	---	---	
ADRA1A	148	broad.mit.edu	37	8	26650555	26650555	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26650555delA	uc003xfh.1	-						ADRA1A_uc003xfc.1_Intron|ADRA1A_uc010lul.1_Intron|ADRA1A_uc003xfd.1_Intron|ADRA1A_uc003xfe.1_Intron|ADRA1A_uc010lum.1_Intron|ADRA1A_uc003xff.1_Intron|ADRA1A_uc003xfg.1_Intron	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1						activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	aagcctaggtaaaaaaaataa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	26742754	26742754	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26742754delA								ADRA1A (19832 upstream) : MIR548H-4 (163616 downstream)																							GGAGTAAAATAAGCTTCCACA	0.453													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	26800346	26800347	+	IGR	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26800346_26800347delGT								ADRA1A (77424 upstream) : MIR548H-4 (106023 downstream)																							AAAATGGGTGgtgtgtgtgtgt	0.064													5	3	---	---	---	---	
SCARA5	286133	broad.mit.edu	37	8	27773443	27773444	+	Intron	DEL	GC	-	-	rs33945861		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27773443_27773444delGC	uc003xgj.2	-						SCARA5_uc010luz.2_Intron|SCARA5_uc003xgk.2_Intron|SCARA5_uc003xgl.2_Intron	NM_173833	NP_776194	Q6ZMJ2	SCAR5_HUMAN	scavenger receptor class A, member 5						cellular iron ion homeostasis|endocytosis|iron ion transmembrane transport|protein homotrimerization	integral to plasma membrane	ferritin receptor activity|scavenger receptor activity			central_nervous_system(1)|skin(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)|Colorectal(74;0.228)		CTTCTGGGCTGCCTCCCCTCTC	0.455													1	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	28506579	28506579	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28506579delT								FZD3 (84620 upstream) : EXTL3 (52574 downstream)																							ccagctaaggtttttttgttt	0.000													4	2	---	---	---	---	
KIF13B	23303	broad.mit.edu	37	8	29096390	29096390	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29096390delA	uc003xhh.3	-						KIF13B_uc003xhj.2_Intron|KIF13B_uc010lvf.1_Intron|KIF13B_uc003xhk.2_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B						microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		TGGAGAGGACAAaaaaagaat	0.224													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	34925066	34925066	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:34925066delT								None (None upstream) : UNC5D (167909 downstream)																							GACTAAGGTGTTTTTTTTTTC	0.289													4	2	---	---	---	---	
UNC5D	137970	broad.mit.edu	37	8	35650487	35650487	+	3'UTR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:35650487delT	uc003xjr.1	+	17					UNC5D_uc003xjs.1_3'UTR|UNC5D_uc003xju.1_3'UTR	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor						apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CTCCCATGGATTTTTTTTTCC	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	36523560	36523560	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36523560delT								UNC5D (871380 upstream) : KCNU1 (118282 downstream)																							GTCTTGGAGGTTTTTTTTTGT	0.323													3	3	---	---	---	---	
KCNU1	157855	broad.mit.edu	37	8	36770121	36770122	+	Intron	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36770121_36770122delTG	uc010lvw.2	+						KCNU1_uc003xjw.2_Intron	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1							voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		ACTCATCATTtgtgtgtgtgtg	0.282													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	37941400	37941400	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37941400delA								EIF4EBP1 (23518 upstream) : ASH2L (21611 downstream)																							cctttagtccaaaaaggcatg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	40966900	40966900	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:40966900delA								ZMAT4 (211557 upstream) : SFRP1 (152579 downstream)																							catctataccaaaaaaaaaaa	0.005													3	3	---	---	---	---	
HOOK3	84376	broad.mit.edu	37	8	42768249	42768249	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42768249delT	uc003xpr.2	+						HOOK3_uc010lxq.1_Intron	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein						cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			agctTCCCACTTtttttttca	0.020			T	RET	papillary thyroid								4	2	---	---	---	---	
HGSNAT	138050	broad.mit.edu	37	8	43000447	43000447	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:43000447delA	uc003xpx.3	+							NM_152419	NP_689632	Q68CP4	HGNAT_HUMAN	heparan-alpha-glucosaminide N-acetyltransferase						lysosomal transport|protein oligomerization	integral to membrane|lysosomal membrane	heparan-alpha-glucosaminide N-acetyltransferase activity				0	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			CATGATGGCCAAAAAAAAGCA	0.468													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	43554391	43554391	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:43554391delC								POTEA (336063 upstream) : None (None downstream)																							ctcctgttttcctaggccttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	48053463	48053463	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48053463delC								BEYLA (286056 upstream) : KIAA0146 (120079 downstream)																							CTGTGATAATCCCCTTCCCAC	0.383													4	2	---	---	---	---	
KIAA0146	23514	broad.mit.edu	37	8	48520708	48520708	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48520708delT	uc003xqd.2	+						KIAA0146_uc011ldb.1_Intron|KIAA0146_uc010lxs.2_Intron|KIAA0146_uc011ldc.1_Intron|KIAA0146_uc011ldd.1_Intron|KIAA0146_uc003xqe.2_Intron|KIAA0146_uc003xqf.2_Intron|KIAA0146_uc011lde.1_Intron|KIAA0146_uc010lxt.2_Intron	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514												0		Lung NSC(58;0.175)				actcatctactttttgtcgct	0.000													4	2	---	---	---	---	
KIAA0146	23514	broad.mit.edu	37	8	48560731	48560731	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48560731delG	uc003xqd.2	+						KIAA0146_uc011ldb.1_Intron|KIAA0146_uc010lxs.2_Intron|KIAA0146_uc011ldc.1_Intron|KIAA0146_uc011ldd.1_Intron|KIAA0146_uc003xqe.2_Intron|KIAA0146_uc003xqf.2_Intron|KIAA0146_uc011lde.1_Intron|KIAA0146_uc010lxt.2_Intron	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514												0		Lung NSC(58;0.175)				gtgcagaactggagatatcca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	50533401	50533401	+	IGR	DEL	A	-	-	rs113343732		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:50533401delA								C8orf22 (544760 upstream) : SNTG1 (288948 downstream)																							actccatctcaaaaaaaaaaa	0.000													3	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	50594755	50594755	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:50594755delC								C8orf22 (606114 upstream) : SNTG1 (227594 downstream)																							AAACTTGAAACCAGAGTTCAT	0.323													4	2	---	---	---	---	
SNTG1	54212	broad.mit.edu	37	8	51226075	51226075	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:51226075delA	uc010lxy.1	+						SNTG1_uc003xqs.1_Intron|SNTG1_uc010lxz.1_Intron|SNTG1_uc011ldl.1_Intron	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1						cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				agacatatctaaaaagaagac	0.000													4	2	---	---	---	---	
ST18	9705	broad.mit.edu	37	8	53099604	53099604	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53099604delA	uc003xqz.2	-						ST18_uc011ldq.1_Intron|ST18_uc011ldr.1_Intron|ST18_uc011lds.1_Intron|ST18_uc003xra.2_Intron|ST18_uc003xrb.2_Intron|ST18_uc010lyb.2_Intron	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				aagtttacttaaaaaaaAAAG	0.174													5	3	---	---	---	---	
ST18	9705	broad.mit.edu	37	8	53274465	53274465	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53274465delT	uc003xra.2	-						ST18_uc003xrb.2_Intron|ST18_uc010lyb.2_Intron	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				TCACACTTTATTTTTTTTTCT	0.279													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	53330760	53330761	+	IGR	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53330760_53330761delCA								ST18 (8321 upstream) : FAM150A (115837 downstream)																							CAAAAAGCCCCACACACACACA	0.233													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	54299523	54299523	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54299523delA								OPRK1 (135329 upstream) : ATP6V1H (328593 downstream)																							aaacaaaaacaaaaaaaaaca	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	54506555	54506559	+	IGR	DEL	CTCGC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54506555_54506559delCTCGC								OPRK1 (342361 upstream) : ATP6V1H (121557 downstream)																							ACACACAAGACTCGCCACATcacat	0.263													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	54506565	54506566	+	IGR	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54506565_54506566delCA								OPRK1 (342371 upstream) : ATP6V1H (121550 downstream)																							CTCGCCACATcacatacaccac	0.233													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	54580252	54580252	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54580252delA								OPRK1 (416058 upstream) : ATP6V1H (47864 downstream)																							AGGACAAGCCAAAAAAAAAAA	0.468													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	56598741	56598742	+	IGR	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:56598741_56598742delAC								XKR4 (160033 upstream) : TMEM68 (52578 downstream)																							GCACACATATACACACACACGG	0.257													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	57438279	57438280	+	Intron	INS	-	T	T	rs142158663	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:57438279_57438280insT	uc003xtb.1	+						uc003xtc.1_Intron					Homo sapiens cDNA FLJ34244 fis, clone FCBBF3028794.																		aaaggaggaagatttgtttgtt	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	57644057	57644057	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:57644057delT								PENK (284775 upstream) : IMPAD1 (226434 downstream)																							aataggacaatttttttttct	0.055													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	60425901	60425901	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:60425901delC								TOX (394134 upstream) : CA8 (675522 downstream)																							TGTAGTTGGTCCCCcatgacc	0.259													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	60645137	60645137	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:60645137delA								TOX (613370 upstream) : CA8 (456286 downstream)																							gacaacatgcaaaaatacatg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	60930568	60930568	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:60930568delT								TOX (898801 upstream) : CA8 (170855 downstream)																							ttatgaagtgtttcccaaact	0.010													4	2	---	---	---	---	
CLVS1	157807	broad.mit.edu	37	8	62257454	62257454	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62257454delA	uc003xuh.2	+						CLVS1_uc003xug.2_Intron|CLVS1_uc003xui.2_Intron|CLVS1_uc010lyp.2_Intron	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1						lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						GACTGGCCAGAAAAAAAAAAA	0.333													4	2	---	---	---	---	
NKAIN3	286183	broad.mit.edu	37	8	63601301	63601302	+	Intron	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:63601301_63601302delAC	uc010lyq.1	+							NM_173688	NP_775959	Q8N8D7	NKAI3_HUMAN	Na+/K+ transporting ATPase interacting 3							integral to membrane|plasma membrane					0	Breast(64;0.127)	Lung NSC(129;0.187)				agacagacagacacacacacac	0.119													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	66884872	66884872	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:66884872delA								PDE7A (131117 upstream) : DNAJC5B (48919 downstream)																							tgcttatagtaaaatgtgaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	67179169	67179170	+	IGR	DEL	CA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67179169_67179170delCA								CRH (88471 upstream) : RRS1 (162093 downstream)																							atgtcctcaccacacacaccaa	0.000													4	2	---	---	---	---	
SGK3	23678	broad.mit.edu	37	8	67732711	67732711	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67732711delC	uc003xwr.2	+						SGK3_uc003xwp.2_Intron|SGK3_uc003xwt.2_Intron|SGK3_uc003xwu.2_Intron	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform						cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)			tgggatatttccactttttgg	0.000													4	2	---	---	---	---	
CPA6	57094	broad.mit.edu	37	8	68387963	68387963	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68387963delT	uc003xxq.3	-						CPA6_uc003xxr.3_Intron	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor						proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			ttcccttctctttttttcttt	0.164													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	69214611	69214611	+	RNA	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69214611delT	uc003xxw.1	-	1		c.2139delA								Homo sapiens cDNA FLJ35230 fis, clone PROST2001415.																		tagttgacaatttttaacaac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	73332945	73332945	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:73332945delT	uc010lzg.2	-											Homo sapiens cDNA, FLJ99767.																		ctatgacacattttttttctg	0.000													4	2	---	---	---	---	
RDH10	157506	broad.mit.edu	37	8	74217881	74217884	+	Intron	DEL	GAAA	-	-	rs111494810		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:74217881_74217884delGAAA	uc003xzi.2	+						RDH10_uc003xzj.2_Intron	NM_172037	NP_742034	Q8IZV5	RDH10_HUMAN	retinol dehydrogenase 10						retinal metabolic process|retinol metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|microsome	binding|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity				0	Breast(64;0.0954)		Epithelial(68;0.0105)|all cancers(69;0.0465)|BRCA - Breast invasive adenocarcinoma(89;0.0608)			CTGGACCTGGGAAAGAAAGTCCTA	0.426													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	74796322	74796323	+	IGR	DEL	CT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:74796322_74796323delCT								UBE2W (5212 upstream) : TCEB1 (62311 downstream)																							cagagggagactctgtctcaaa	0.074													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	77153598	77153599	+	IGR	INS	-	G	G	rs148609995	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77153598_77153599insG								HNF4G (674539 upstream) : LOC100192378 (369516 downstream)																							tcttgtctgcactgatcggggc	0.000													4	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	77204294	77204294	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77204294delA								HNF4G (725235 upstream) : LOC100192378 (318821 downstream)																							GATTTATCACAATACTCAAAA	0.308													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	77376748	77376751	+	IGR	DEL	GTGT	-	-	rs113318472	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77376748_77376751delGTGT								HNF4G (897689 upstream) : LOC100192378 (146364 downstream)																							CATTTTtgtggtgtgtgtgtgtgt	0.289													3	3	---	---	---	---	
ZFHX4	79776	broad.mit.edu	37	8	77638100	77638101	+	Intron	DEL	AA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77638100_77638101delAA	uc003yav.2	+						ZFHX4_uc003yau.1_Intron|ZFHX4_uc003yaw.1_Intron	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATAATCTGTTAATACCAGTTAG	0.351										HNSCC(33;0.089)			4	2	---	---	---	---	
ZFHX4	79776	broad.mit.edu	37	8	77668615	77668615	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77668615delT	uc003yav.2	+						ZFHX4_uc003yau.1_Intron|ZFHX4_uc003yaw.1_Intron	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCAAGACACATTTTTTTTTAA	0.338										HNSCC(33;0.089)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	78915718	78915718	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:78915718delG								None (None upstream) : PKIA (512618 downstream)																							GACAAAGTATGGGGAGTAAAT	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	79418902	79418904	+	IGR	DEL	ATG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:79418902_79418904delATG								None (None upstream) : PKIA (9432 downstream)																							TAGTGCCAGCatgatgatgatga	0.246													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	81253222	81253222	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81253222delT								TPD52 (169386 upstream) : ZBTB10 (144632 downstream)																							ttatcaaaggtttttgaatga	0.149													4	2	---	---	---	---	
PAG1	55824	broad.mit.edu	37	8	82004759	82004759	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:82004759delG	uc003ybz.2	-							NM_018440	NP_060910	Q9NWQ8	PAG1_HUMAN	phosphoprotein associated with glycosphingolipid						epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)			TCAGAATGAAGGGGTTTCTAA	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	82934791	82934791	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:82934791delT								SNX16 (180270 upstream) : None (None downstream)																							AGAGTTACACTTTTCtgcagc	0.109													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	83095254	83095255	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:83095254_83095255insT								SNX16 (340733 upstream) : None (None downstream)																							ataactgcaaatttaggtatct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	83216304	83216304	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:83216304delA								SNX16 (461783 upstream) : None (None downstream)																							GGTACTTGTCACCACAATTAT	0.279													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	84186576	84186576	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:84186576delT								None (None upstream) : RALYL (908877 downstream)																							GTATGCTACATTTTTTTTTGT	0.308													4	2	---	---	---	---	
E2F5	1875	broad.mit.edu	37	8	86117687	86117687	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:86117687delT	uc003ycz.3	+						E2F5_uc003yda.3_Intron|E2F5_uc010mab.2_Intron|E2F5_uc003ydb.3_5'Flank	NM_001951	NP_001942	Q15329	E2F5_HUMAN	E2F transcription factor 5 isoform 1						G1 phase of mitotic cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1						actagacttctttttttatct	0.000													4	2	---	---	---	---	
CPNE3	8895	broad.mit.edu	37	8	87528076	87528077	+	Intron	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:87528076_87528077delTG	uc003ydv.2	+							NM_003909	NP_003900	O75131	CPNE3_HUMAN	copine III						lipid metabolic process|vesicle-mediated transport	cytosol	calcium-dependent phospholipid binding|protein serine/threonine kinase activity|transporter activity			ovary(1)|skin(1)	2						ACTAGCTCTCTGTGTGTGCTGC	0.356													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	88746846	88746847	+	IGR	INS	-	T	T	rs112992071		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:88746846_88746847insT								CNBD1 (351891 upstream) : DCAF4L2 (136126 downstream)																							taactccagaattttttttttt	0.015													4	2	---	---	---	---	
MMP16	4325	broad.mit.edu	37	8	89168838	89168838	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:89168838delA	uc003yeb.3	-						MMP16_uc003yec.2_Intron	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1						collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						GTAATTCTGCAAAAAAAAGTT	0.239													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	89376591	89376592	+	IGR	INS	-	T	T	rs33940119		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:89376591_89376592insT								MMP16 (36874 upstream) : None (None downstream)																							TAATAgttttgtttttttttgt	0.272													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	93644951	93644952	+	IGR	DEL	TG	-	-	rs72082298		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:93644951_93644952delTG								RUNX1T1 (537245 upstream) : C8orf83 (250913 downstream)																							GTAGGCTGCAtgtgtgtgtgtg	0.282													5	3	---	---	---	---	
CDH17	1015	broad.mit.edu	37	8	95211697	95211698	+	Intron	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95211697_95211698insC	uc003ygh.2	-						CDH17_uc011lgo.1_Intron|CDH17_uc011lgp.1_Intron	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor							integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			TAATTTTTTTTTTTTTAACACC	0.317													4	2	---	---	---	---	
PGCP	10404	broad.mit.edu	37	8	97675991	97675992	+	Intron	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:97675991_97675992delTG	uc003yhw.2	+							NM_016134	NP_057218	Q9Y646	PGCP_HUMAN	plasma glutamate carboxypeptidase precursor						peptide metabolic process|proteolysis	cytoplasm|extracellular space	metal ion binding|metallocarboxypeptidase activity			upper_aerodigestive_tract(1)	1	Breast(36;1.86e-05)					ggtgtgtgtttgtgtgtgtgtg	0.302													4	2	---	---	---	---	
PGCP	10404	broad.mit.edu	37	8	97902441	97902441	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:97902441delA	uc003yhw.2	+						PGCP_uc010mbe.2_Intron	NM_016134	NP_057218	Q9Y646	PGCP_HUMAN	plasma glutamate carboxypeptidase precursor						peptide metabolic process|proteolysis	cytoplasm|extracellular space	metal ion binding|metallocarboxypeptidase activity			upper_aerodigestive_tract(1)	1	Breast(36;1.86e-05)					atgacaaaggaaaaagaaaat	0.000													4	2	---	---	---	---	
VPS13B	157680	broad.mit.edu	37	8	100035648	100035648	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:100035648delT	uc003yiv.2	+						VPS13B_uc003yiw.2_Intron|VPS13B_uc003yit.2_Intron|VPS13B_uc003yiu.1_Intron|VPS13B_uc003yis.2_Intron|VPS13B_uc011lgy.1_Intron	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5						protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			aaagacaagattttttttctg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	106089902	106089902	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:106089902delA								LRP12 (488682 upstream) : ZFPM2 (241245 downstream)																							tgctcaggtgagagaatgatg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	106089904	106089904	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:106089904delA								LRP12 (488684 upstream) : ZFPM2 (241243 downstream)																							ctcaggtgagagaatgatggt	0.000													4	2	---	---	---	---	
ZFPM2	23414	broad.mit.edu	37	8	106455127	106455128	+	Intron	INS	-	T	T	rs145127235	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:106455127_106455128insT	uc003ymd.2	+							NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2						blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			GAAGTTCAGTGTTTTTTTTTTG	0.297													4	2	---	---	---	---	
PKHD1L1	93035	broad.mit.edu	37	8	110481404	110481404	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110481404delA	uc003yne.2	+							NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor						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)			tactgggatcaaaaaacccaa	0.000										HNSCC(38;0.096)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	110735059	110735059	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110735059delA								SYBU (31039 upstream) : KCNV1 (244176 downstream)																							agcatttgagaaagccattgc	0.020													4	2	---	---	---	---	
CSMD3	114788	broad.mit.edu	37	8	113997223	113997224	+	Intron	INS	-	GATA	GATA	rs144422634	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113997223_113997224insGATA	uc003ynu.2	-						CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						tgatagattatgatagatagat	0.203										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	115919032	115919032	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:115919032delA								None (None upstream) : TRPS1 (501693 downstream)																							GCCTATAAGGAAATAAGAGAG	0.308													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	117062736	117062736	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:117062736delA								TRPS1 (381508 upstream) : EIF3H (594320 downstream)																							AAAAGAACTGAAAAAAAAAAT	0.318													3	3	---	---	---	---	
EXT1	2131	broad.mit.edu	37	8	118969848	118969848	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:118969848delA	uc003yok.1	-							NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1						glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			agggGTTTATAAAAAGGCAAA	0.353			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				4	2	---	---	---	---	
DEPDC6	64798	broad.mit.edu	37	8	120989630	120989630	+	Intron	DEL	A	-	-	rs112346556		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120989630delA	uc003yow.3	+						DEPDC6_uc011lid.1_Intron	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6						intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CTTTGAACAGAAAAAAAAAAG	0.284													3	3	---	---	---	---	
SNTB1	6641	broad.mit.edu	37	8	121807487	121807487	+	Intron	DEL	A	-	-	rs34797724		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:121807487delA	uc010mdg.2	-						SNTB1_uc003ype.2_Intron	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin						muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			TGGAGAAGTTaaaaaaaaaaa	0.299													4	2	---	---	---	---	
ZHX2	22882	broad.mit.edu	37	8	123944550	123944551	+	Intron	INS	-	TTC	TTC	rs140369092	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:123944550_123944551insTTC	uc003ypk.1	+							NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2							cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			ccacaagtttattctctttaat	0.094													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	124297089	124297090	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124297089_124297090insA								ZHX1 (9308 upstream) : ATAD2 (35003 downstream)																							TAAACTGAATGAAAAAAAAATT	0.302													4	3	---	---	---	---	
ZNF572	137209	broad.mit.edu	37	8	125988146	125988147	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125988146_125988147insT	uc003yrr.2	+							NM_152412	NP_689625	Q7Z3I7	ZN572_HUMAN	zinc finger protein 572						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			atattttagaattagtgagata	0.109										HNSCC(60;0.17)			12	10	---	---	---	---	
NSMCE2	286053	broad.mit.edu	37	8	126230123	126230123	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126230123delA	uc003yrw.2	+							NM_173685	NP_775956	Q96MF7	NSE2_HUMAN	non-SMC element 2, MMS21 homolog						DNA recombination|DNA repair	nucleus	ligase activity|zinc ion binding			breast(1)	1	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)			TCTAAATATGAAAAAAAAAAA	0.378													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	127068920	127068921	+	IGR	INS	-	GCC	GCC	rs137921386	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127068920_127068921insGCC								TRIB1 (618278 upstream) : FAM84B (495766 downstream)																							CTCTGATAGTAGCCATAGATAA	0.361													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	127088939	127088939	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127088939delT								TRIB1 (638297 upstream) : FAM84B (475748 downstream)																							GTCTCTTACATTTTTTCCTTC	0.299													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	127466679	127466680	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127466679_127466680insT								None (None upstream) : FAM84B (98007 downstream)																							TCTTCCCTTTATTTTTTTTCAT	0.297													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	127873186	127873186	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127873186delG								FAM84B (302720 upstream) : LOC727677 (428876 downstream)																							actcagaagtggggttgctgg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	128315179	128315179	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128315179delA	uc003ysc.1	-						uc003ysd.1_Intron|LOC727677_uc003yse.1_Intron					Homo sapiens isolate DGPc1_8_exons1-2-3-4-6-8 unknown mRNA, alternatively spliced.																		CCTGAGAAAGAGGAACTAGGA	0.483													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	128670882	128670882	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128670882delT								LOC727677 (176498 upstream) : MYC (76883 downstream)																							ctcaattccctttataatagg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	130677932	130677932	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:130677932delA								None (None upstream) : GSDMC (82511 downstream)																							cactagagacaaaagagtaaa	0.000													4	2	---	---	---	---	
ADCY8	114	broad.mit.edu	37	8	131901330	131901330	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131901330delT	uc003ytd.3	-						ADCY8_uc010mds.2_Intron	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8						activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GAGTGATCTATTTCGTTGTTA	0.383										HNSCC(32;0.087)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	132331356	132331356	+	IGR	DEL	T	-	-	rs11285765		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132331356delT								ADCY8 (278521 upstream) : EFR3A (585003 downstream)																							ccctatcccctatgcctcctc	0.000													5	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	132823826	132823826	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132823826delC								ADCY8 (770991 upstream) : EFR3A (92533 downstream)																							AAAGGAACCTCCCCGCATGAC	0.433													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	132825833	132825833	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132825833delA								ADCY8 (772998 upstream) : EFR3A (90526 downstream)																							AAAAAAAAACAATTTAAAATG	0.353													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	134176952	134176952	+	IGR	DEL	T	-	-	rs11326453		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134176952delT								TG (29811 upstream) : WISP1 (26360 downstream)																							ttactccacatcccctccatt	0.000													3	6	---	---	---	---	
NDRG1	10397	broad.mit.edu	37	8	134276321	134276321	+	Intron	DEL	C	-	-	rs62514048		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134276321delC	uc003yuh.2	-						NDRG1_uc003yug.2_Intron|NDRG1_uc010mee.2_Intron|NDRG1_uc010mef.2_Intron|NDRG1_uc011ljh.1_Intron|NDRG1_uc011lji.1_Intron	NM_001135242	NP_001128714	Q92597	NDRG1_HUMAN	N-myc downstream regulated 1						cellular response to hypoxia|response to metal ion	cytoplasm|microtubule cytoskeleton|nucleus|plasma membrane	protein binding			ovary(4)	4	all_epithelial(106;4.26e-24)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			aagccagttaccaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	136437860	136437860	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:136437860delA								LOC286094 (125901 upstream) : KHDRBS3 (31856 downstream)																							GCTGTGTGGGACCCATGGGCT	0.323													4	2	---	---	---	---	
KHDRBS3	10656	broad.mit.edu	37	8	136484753	136484754	+	Intron	INS	-	T	T	rs147681913	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:136484753_136484754insT	uc003yuv.2	+						KHDRBS3_uc003yuw.2_Intron	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal						regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			aatgaatgaCGTATGTGAAAGC	0.218													4	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	137542020	137542020	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:137542020delT								KHDRBS3 (882174 upstream) : None (None downstream)																							CCTTAGTGGATTTTTTTTTTG	0.294													6	3	---	---	---	---	
FAM135B	51059	broad.mit.edu	37	8	139366035	139366037	+	Intron	DEL	TGT	-	-	rs5895516		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139366035_139366037delTGT	uc003yuy.2	-						FAM135B_uc003yux.2_Intron|FAM135B_uc003yuz.2_Intron	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059											ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CCTGTGCTAGTGTTGTATAGtca	0.049										HNSCC(54;0.14)			4	3	---	---	---	---	
TRAPPC9	83696	broad.mit.edu	37	8	141102279	141102280	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141102279_141102280insT	uc003yvj.2	-						TRAPPC9_uc003yvh.2_Intron|TRAPPC9_uc010mel.1_Intron|TRAPPC9_uc003yvi.1_Intron	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform						cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						attcttcaacatttttttttac	0.064													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	142521287	142521288	+	IGR	INS	-	C	C	rs150803579	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142521287_142521288insC								FLJ43860 (3957 upstream) : MIR1302-7 (346315 downstream)																							ACACAGAGTGTCCCCCCGACCT	0.460													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	7239635	7239635	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:7239635delA								KDM4C (63988 upstream) : C9orf123 (556858 downstream)																							ttccacttccaaaaagatggc	0.095													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	7403528	7403529	+	IGR	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:7403528_7403529delAC								KDM4C (227881 upstream) : C9orf123 (392964 downstream)																							atgcacacagacacacacacac	0.282													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	13513903	13513903	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:13513903delG								MPDZ (234340 upstream) : NFIB (567945 downstream)																							TTAGTGCTTTGTCACTGCTCA	0.522													4	2	---	---	---	---	
MLLT3	4300	broad.mit.edu	37	9	20413240	20413240	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:20413240delA	uc003zoe.2	-						MLLT3_uc011lne.1_Intron|MLLT3_uc011lnf.1_Intron|MLLT3_uc003zof.2_Intron	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		aaaactggttaaaaaaaTACT	0.149			T	MLL	ALL								4	2	---	---	---	---	
KIAA1797	54914	broad.mit.edu	37	9	20970759	20970759	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:20970759delT	uc003zog.1	+						KIAA1797_uc003zoh.1_Intron	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914							integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		atgctccatatttttttgaaa	0.040													4	2	---	---	---	---	
CDKN2A	1029	broad.mit.edu	37	9	21968967	21968967	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:21968967delT	uc003zpk.2	-						MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_Intron|CDKN2A_uc010miu.2_Intron|CDKN2A_uc003zpl.2_Intron	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1						cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(3)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		TGAGGCAGCATTTGCACTTGA	0.289		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	27732646	27732646	+	IGR	DEL	A	-	-	rs140453581		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:27732646delA								C9orf72 (158804 upstream) : LINGO2 (215882 downstream)																							GAtgccattgaaaaaaaaatt	0.124													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	29963429	29963429	+	IGR	DEL	A	-	-	rs34689006		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:29963429delA								None (None upstream) : None (None downstream)																							GAAGCACAGTAACACTCAAGG	0.373													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	30236129	30236129	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:30236129delT								None (None upstream) : None (None downstream)																							GCATCTCCAGTTTTTTTCTTA	0.318													4	2	---	---	---	---	
RNF38	152006	broad.mit.edu	37	9	36357196	36357196	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:36357196delA	uc003zzh.2	-						RNF38_uc003zzi.2_Intron|RNF38_uc003zzj.2_Intron|RNF38_uc003zzk.2_Intron|RNF38_uc003zzl.2_Intron|RNF38_uc003zzm.2_Intron	NM_022781	NP_073618	Q9H0F5	RNF38_HUMAN	ring finger protein 38 isoform 1								zinc ion binding			central_nervous_system(1)	1			STAD - Stomach adenocarcinoma(86;0.228)			cagaggcaagaaaaaaaaagt	0.129													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66478299	66478299	+	IGR	DEL	G	-	-	rs139319632		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66478299delG								FAM74A4 (983913 upstream) : LOC442421 (18171 downstream)																							ttaagttctagggtacatgtg	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66484533	66484533	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66484533delG								FAM74A4 (990147 upstream) : LOC442421 (11937 downstream)																							tggctgaggtgggtggatgat	0.000													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68714295	68714295	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68714295delC								FAM27B (920106 upstream) : MIR1299 (287944 downstream)																							gtaaaaaaaactgtaaacaca	0.000													4	2	---	---	---	---	
TJP2	9414	broad.mit.edu	37	9	71852569	71852569	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:71852569delA	uc004ahe.2	+						TJP2_uc011lrs.1_Intron|TJP2_uc011lrt.1_Intron|TJP2_uc004ahd.2_Intron|TJP2_uc004ahf.2_Intron|TJP2_uc011lru.1_Intron|TJP2_uc011lrv.1_Intron	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)						cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						cttgtctcttaaaaaaaaaTC	0.164													4	2	---	---	---	---	
TRPM3	80036	broad.mit.edu	37	9	74009015	74009015	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:74009015delA	uc004aii.2	-							NM_206948	NP_996831	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,							integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						aaacactgCTAAAACACCAGA	0.164													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	74405382	74405382	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:74405382delT								TMEM2 (21582 upstream) : FAM108B1 (71988 downstream)																							CAATAGGGAGTTTTTTTGTat	0.204													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	78120218	78120218	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:78120218delT								OSTF1 (358105 upstream) : PCSK5 (385342 downstream)																							GCTCACCAGATTTTTTTTCAG	0.209													4	2	---	---	---	---	
PCSK5	5125	broad.mit.edu	37	9	78751144	78751144	+	Intron	DEL	A	-	-	rs76328548		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:78751144delA	uc004ajz.2	+						PCSK5_uc004ajy.2_Intron|PCSK5_uc004aka.2_Intron	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5						anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						ATGACTTAAGAAAAAAAAAAA	0.403													4	3	---	---	---	---	
GNA14	9630	broad.mit.edu	37	9	80217623	80217624	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:80217623_80217624insT	uc004aku.2	-							NM_004297	NP_004288	O95837	GNA14_HUMAN	G alpha 14						activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(2)	2						TAATGGTTTTGTTTTTTTTTTC	0.277													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	81882090	81882091	+	IGR	INS	-	CAT	CAT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:81882090_81882091insCAT								PSAT1 (937083 upstream) : TLE4 (304787 downstream)																							gactgtggccacatcatacaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	82515606	82515607	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:82515606_82515607insT								TLE4 (173949 upstream) : None (None downstream)																							CCACCTTCCCCTGTGGTGTCAT	0.584													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	89000929	89000929	+	IGR	DEL	A	-	-	rs35235212		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:89000929delA								ZCCHC6 (31551 upstream) : GAS1 (558350 downstream)																							ctgtacctctaactcacccac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	91123917	91123917	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:91123917delA								SPIN1 (30297 upstream) : NXNL2 (26099 downstream)																							TTACAGACCTAAAAaaaagag	0.249													4	2	---	---	---	---	
LOC100129066	100129066	broad.mit.edu	37	9	92265096	92265097	+	Intron	DEL	GA	-	-	rs12552930		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:92265096_92265097delGA	uc004aqs.2	+							NR_024280				Homo sapiens cDNA FLJ42342 fis, clone UTERU2000794.												0						gtgtgtgtgtgAGAGAGAGGGG	0.218													3	5	---	---	---	---	
NCBP1	4686	broad.mit.edu	37	9	100432215	100432215	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100432215delT	uc004axq.2	+							NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa						gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)				CCGCCCCACCttttttttgag	0.239													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	105028429	105028429	+	IGR	DEL	G	-	-	rs61597312		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:105028429delG								GRIN3A (527567 upstream) : CYLC2 (729164 downstream)																							ttGCCCTGATGGCATGTTAGA	0.199													3	5	---	---	---	---	
NIPSNAP3B	55335	broad.mit.edu	37	9	107537232	107537233	+	Intron	INS	-	AG	AG			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:107537232_107537233insAG	uc004bcj.1	+						LOC286367_uc004bck.3_RNA			Q9BS92	NPS3B_HUMAN	Homo sapiens cDNA FLJ11275 fis, clone PLACE1009375.											pancreas(1)|skin(1)	2						taacaatcagaagagtcttcat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	110770614	110770615	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:110770614_110770615insC								KLF4 (518567 upstream) : ACTL7B (846256 downstream)																							gctctggatttccaggaccatc	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	112318700	112318701	+	IGR	DEL	TA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112318700_112318701delTA								PTPN3 (58107 upstream) : PALM2 (84371 downstream)																							tgtttctctgtatatatacagg	0.089													4	2	---	---	---	---	
PALM2	114299	broad.mit.edu	37	9	112420483	112420483	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112420483delA	uc004beg.2	+						PALM2_uc004bef.2_Intron	NM_001037293	NP_001032370	Q8IXS6	PALM2_HUMAN	paralemmin 2 isoform b						regulation of cell shape	plasma membrane				ovary(2)	2						gtgttcagggaggttcaggag	0.000													4	2	---	---	---	---	
KIAA0368	23392	broad.mit.edu	37	9	114161478	114161478	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114161478delA	uc004bfe.1	-							NM_001080398	NP_001073867			KIAA0368 protein												0						taaaattgagaaaaaaaaagc	0.000													4	2	---	---	---	---	
KIAA1958	158405	broad.mit.edu	37	9	115296830	115296830	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115296830delT	uc004bgf.1	+						KIAA1958_uc011lwx.1_Intron	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405											skin(1)	1						ttcttttttcttttttttttt	0.000													4	2	---	---	---	---	
SNX30	401548	broad.mit.edu	37	9	115574950	115574951	+	Intron	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115574950_115574951delTG	uc004bgj.3	+							NM_001012994	NP_001013012	Q5VWJ9	SNX30_HUMAN	sorting nexin family member 30						cell communication|protein transport	cytoplasm	phosphatidylinositol binding				0						AAATGAGCATTGTGTGTGTGTG	0.312													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	121533587	121533587	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:121533587delA								None (None upstream) : DBC1 (395321 downstream)																							TAACTGATATAAAAAAAATTC	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	126061654	126061654	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:126061654delT								STRBP (30811 upstream) : CRB2 (56794 downstream)																							atacaggagatttttttttca	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	126835216	126835216	+	IGR	DEL	A	-	-	rs75449816	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:126835216delA								LHX2 (39774 upstream) : NEK6 (184670 downstream)																							TGCAAAGAAGAAAAAAAAAAG	0.363													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	129292045	129292045	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129292045delT								FAM125B (18346 upstream) : LMX1B (84703 downstream)																							TCATGTTTCCTTTTTTCATGT	0.284													4	2	---	---	---	---	
COL5A1	1289	broad.mit.edu	37	9	137577220	137577221	+	Intron	INS	-	CCAT	CCAT	rs138665013		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137577220_137577221insCCAT	uc004cfe.2	+							NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein						axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		catccattcacccatccattca	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	138327659	138327660	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138327659_138327660insA								OLFM1 (314628 upstream) : KIAA0649 (43988 downstream)																							caaagaaaattaaaaaaaaaaa	0.000													4	2	---	---	---	---	
LARP4B	23185	broad.mit.edu	37	10	910364	910364	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:910364delA	uc001ifs.1	-							NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B								nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						GTTCaaaattaaaaaaaaaaa	0.388													6	3	---	---	---	---	
ADARB2	105	broad.mit.edu	37	10	1512429	1512429	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1512429delA	uc009xhq.2	-							NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2						mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		cagtcagattaaaaaataagt	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	3240000	3240000	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3240000delT								PITRM1 (24997 upstream) : KLF6 (578189 downstream)																							TGTGGATTTCTTAGGGTTGAG	0.453											OREG0019978	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	4617304	4617305	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:4617304_4617305insA								KLF6 (789831 upstream) : LOC100216001 (4139 downstream)																							aaactaacctcaaaaaattaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	5551181	5551181	+	IGR	DEL	A	-	-	rs7919331	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5551181delA								CALML5 (9648 upstream) : CALML3 (15743 downstream)																							GCCAGTTCACAAGAAGTCACT	0.483													4	2	---	---	---	---	
SFMBT2	57713	broad.mit.edu	37	10	7217721	7217722	+	Intron	INS	-	A	A	rs140257360	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7217721_7217722insA	uc009xio.1	-						SFMBT2_uc001ijn.1_Intron|SFMBT2_uc010qay.1_Intron	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2						regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						TTCCAAGGCCTACCAATGAAAA	0.401													13	7	---	---	---	---	
GATA3	2625	broad.mit.edu	37	10	8106249	8106252	+	Intron	DEL	TTTC	-	-	rs66514322		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:8106249_8106252delTTTC	uc001ika.2	+						GATA3_uc001ijz.2_Intron	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2						aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						ttttttcctttttctttctttctt	0.328			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	10458979	10458979	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:10458979delA								None (None upstream) : SFTA1P (367423 downstream)																							TAGAATACAGAAAATGTTTAA	0.368													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	10747631	10747631	+	IGR	DEL	C	-	-	rs117278637	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:10747631delC								None (None upstream) : SFTA1P (78771 downstream)																							TCTTGGATGTCCCCTGTCACT	0.408													4	2	---	---	---	---	
CELF2	10659	broad.mit.edu	37	10	11102597	11102597	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11102597delT	uc001iki.3	+						CELF2_uc010qbi.1_Intron|CELF2_uc010qbj.1_Intron|CELF2_uc001ikk.2_Intron|CELF2_uc001ikl.3_Intron	NM_001025077	NP_001020248	O95319	CELF2_HUMAN	CUG triplet repeat, RNA binding protein 2						mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0						agatactgccttttttttcct	0.090													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	11472362	11472362	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11472362delC								CELF2 (93692 upstream) : USP6NL (30147 downstream)																							caCCCTGATTCCCACCACAGA	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	15512940	15512940	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15512940delT								FAM171A1 (99882 upstream) : ITGA8 (46148 downstream)																							TTTTGTGTTATTTTCAATCAG	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	16329624	16329626	+	IGR	DEL	AAC	-	-	rs147871295	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16329624_16329626delAAC								FAM188A (427105 upstream) : PTER (149341 downstream)																							aggtttcaaaaacaaaaaaaggg	0.000													4	2	---	---	---	---	
CACNB2	783	broad.mit.edu	37	10	18494016	18494016	+	Intron	DEL	A	-	-	rs143267924		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18494016delA	uc001ipr.2	+						CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Intron|CACNB2_uc001ipt.2_Intron|CACNB2_uc010qcl.1_Intron|CACNB2_uc001ipu.2_Intron|CACNB2_uc001ipv.2_Intron|CACNB2_uc009xka.1_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2						axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GAGGGTTTTTAAAAAAAAATT	0.269													4	2	---	---	---	---	
PLXDC2	84898	broad.mit.edu	37	10	20556770	20556770	+	Intron	DEL	T	-	-	rs72082285		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:20556770delT	uc001iqg.1	+						PLXDC2_uc001iqh.1_Intron|PLXDC2_uc009xkc.1_Intron	NM_032812	NP_116201	Q6UX71	PXDC2_HUMAN	plexin domain containing 2 precursor							integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4						CTTTTTTATCTTTTTTTTTTT	0.259													0	6	---	---	---	---	
NCRNA00202	387644	broad.mit.edu	37	10	27226195	27226196	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27226195_27226196insA	uc001itf.2	-							NR_026795				Homo sapiens cDNA FLJ40086 fis, clone TESTI2003031.												0						ACTTGTCTGCTAAAAAAAAACC	0.574													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	30935036	30935036	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30935036delA								LYZL2 (16389 upstream) : ZNF438 (198531 downstream)																							GGAaaagaataaaaaactgag	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	32062943	32062944	+	IGR	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:32062943_32062944delGT								ZEB1 (244816 upstream) : ARHGAP12 (32281 downstream)																							gtgtgaatgagtgtgtgtgtgc	0.188													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	36513696	36513697	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:36513696_36513697delTG								FZD8 (583334 upstream) : ANKRD30A (901088 downstream)																							AAGATGCCCTTGTACTTGTTTT	0.436													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42652344	42652344	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42652344delC								None (None upstream) : LOC441666 (174971 downstream)																							cagtgaaggacaaatacagta	0.000													4	2	---	---	---	---	
ANXA8	653145	broad.mit.edu	37	10	47059580	47059581	+	Intron	INS	-	G	G	rs147774327		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47059580_47059581insG	uc001jed.3	-									P13928	ANXA8_HUMAN	Homo sapiens cDNA FLJ58071 complete cds, highly similar to Annexin A8.						blood coagulation		calcium ion binding|calcium-dependent phospholipid binding			central_nervous_system(3)	3						caccccacacacatacacacac	0.124													3	3	---	---	---	---	
PRKG1	5592	broad.mit.edu	37	10	52969294	52969294	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:52969294delT	uc001jjm.2	+						PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron|PRKG1_uc010qhp.1_Intron	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform						actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		TTCTTTCTTGTTTTAGTAGTT	0.239													4	2	---	---	---	---	
PCDH15	65217	broad.mit.edu	37	10	55710805	55710805	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55710805delG	uc001jju.1	-						PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Intron|PCDH15_uc010qhw.1_Intron|PCDH15_uc010qhx.1_Intron|PCDH15_uc010qhy.1_Intron|PCDH15_uc010qhz.1_Intron|PCDH15_uc010qia.1_Intron|PCDH15_uc010qib.1_Intron	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GTCAAGTATTGAAATGATTAT	0.149										HNSCC(58;0.16)			4	2	---	---	---	---	
PCDH15	65217	broad.mit.edu	37	10	55793286	55793286	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55793286delT	uc001jju.1	-						PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Intron|PCDH15_uc010qhw.1_Intron|PCDH15_uc010qhx.1_Intron|PCDH15_uc010qhy.1_Intron|PCDH15_uc010qhz.1_Intron|PCDH15_uc010qia.1_Intron|PCDH15_uc010qib.1_Intron|PCDH15_uc001jjw.2_Intron	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TCAGCACTCATTACAGTGGCA	0.338										HNSCC(58;0.16)			4	2	---	---	---	---	
PCDH15	65217	broad.mit.edu	37	10	55851109	55851109	+	Intron	DEL	T	-	-	rs77591138		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55851109delT	uc001jju.1	-						PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Intron|PCDH15_uc010qhw.1_Intron|PCDH15_uc010qhx.1_Intron|PCDH15_uc010qhy.1_Intron|PCDH15_uc010qhz.1_Intron|PCDH15_uc010qia.1_Intron|PCDH15_uc010qib.1_Intron|PCDH15_uc001jjw.2_Intron	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GTCAGCAGGATTCTGAGAGAG	0.448										HNSCC(58;0.16)			6	5	---	---	---	---	
PCDH15	65217	broad.mit.edu	37	10	55944650	55944650	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55944650delT	uc001jju.1	-						PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Intron|PCDH15_uc010qhw.1_Intron|PCDH15_uc010qhx.1_Intron|PCDH15_uc010qhy.1_Intron|PCDH15_uc010qhz.1_Intron|PCDH15_uc010qia.1_Intron|PCDH15_uc010qib.1_Intron|PCDH15_uc001jjw.2_Intron	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TCTCACTTTCTTTTTTTTTTG	0.249										HNSCC(58;0.16)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	58019294	58019295	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:58019294_58019295insA								PCDH15 (631592 upstream) : ZWINT (97904 downstream)																							TGGGTTAAGAGAAAAAAGGATG	0.213													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	59506584	59506584	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:59506584delT								None (None upstream) : IPMK (449034 downstream)																							ctcattgtggttttgatttac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	60770971	60770971	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:60770971delG								BICC1 (182126 upstream) : PHYHIPL (165377 downstream)																							ccTAAAGATCGCCCTATCATG	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	64752385	64752385	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64752385delT								EGR2 (173458 upstream) : NRBF2 (140622 downstream)																							ACAAAGGCTGTTCTCATGTTG	0.443													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	66950267	66950267	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:66950267delT								ANXA2P3 (363633 upstream) : CTNNA3 (729458 downstream)																							ATTTTACAGGTTTTTTTTTTG	0.294													4	2	---	---	---	---	
CTNNA3	29119	broad.mit.edu	37	10	68118111	68118111	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:68118111delA	uc009xpn.1	-						CTNNA3_uc001jmw.2_Intron	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3						cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						aaatatggggaaaaaaagggg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	74445396	74445397	+	IGR	INS	-	T	T	rs76319153		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74445396_74445397insT								CBARA1 (59497 upstream) : CCDC109A (6492 downstream)																							cttttcttttctttttttttTT	0.114													4	2	---	---	---	---	
TTC18	118491	broad.mit.edu	37	10	75044046	75044046	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75044046delT	uc009xrc.2	-						TTC18_uc001jty.2_Intron|TTC18_uc001jtv.3_Intron|TTC18_uc001jtw.3_Intron|TTC18_uc001jtx.2_Intron	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18								binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					tcacattgtctttttttttgt	0.000													4	2	---	---	---	---	
TTC18	118491	broad.mit.edu	37	10	75113768	75113768	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75113768delT	uc009xrc.2	-						TTC18_uc001jty.2_Intron|TTC18_uc009xrd.1_Intron	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18								binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					CTGTGGAACAtttttttttct	0.164													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	77099078	77099078	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:77099078delA	uc001jxd.1	+											Homo sapiens cDNA FLJ13383 fis, clone PLACE1001024.																		TCTCATGTATAAAAAAAAGGA	0.398													4	2	---	---	---	---	
C10orf11	83938	broad.mit.edu	37	10	77648153	77648153	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:77648153delT	uc001jxi.2	+							NM_032024	NP_114413	Q9H2I8	CJ011_HUMAN	chromosome 10 open reading frame 11												0	Prostate(51;0.0095)|all_epithelial(25;0.0221)					ATATCTGTCCTTTCCTCTCAG	0.423													4	2	---	---	---	---	
KCNMA1	3778	broad.mit.edu	37	10	79325209	79325209	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:79325209delA	uc001jxn.2	-						KCNMA1_uc001jxj.2_Intron|KCNMA1_uc001jxo.2_Intron|KCNMA1_uc001jxm.2_Intron|KCNMA1_uc001jxq.2_Intron	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium						cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	AAGGTAGAGGAAAAAAATGTG	0.294													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	80157317	80157317	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:80157317delG	uc010qlp.1	+						uc001jzw.1_RNA					SubName: Full=cDNA FLJ57363;																		AAAAAGGTATGGGAAGAAGCT	0.493													4	2	---	---	---	---	
LOC283050	283050	broad.mit.edu	37	10	80791187	80791188	+	Intron	DEL	AG	-	-	rs72008461		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:80791187_80791188delAG	uc001jzz.2	-						LOC283050_uc001jzx.2_Intron|LOC283050_uc001jzy.2_Intron|LOC283050_uc001kab.1_Intron	NR_024431				Homo sapiens cDNA FLJ40604 fis, clone THYMU2011806.												0						ACACAAACTCAGAGAGAGAGAG	0.257													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	82057637	82057637	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:82057637delT								MAT1A (8203 upstream) : DYDC1 (38227 downstream)																							CTATGTAttcttttttttttt	0.219													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	83022674	83022674	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:83022674delG								SH2D4B (616358 upstream) : NRG3 (612396 downstream)																							ctttgtttatggtgtgagaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	85587030	85587034	+	IGR	DEL	GATTG	-	-	rs150504452		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:85587030_85587034delGATTG								NRG3 (840095 upstream) : GHITM (312151 downstream)																							gcatcaacttgattggattgaagga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	89761749	89761749	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:89761749delA								PTEN (33218 upstream) : RNLS (130308 downstream)																							ATGCGTGAAGAAAAAAATCTG	0.289													4	2	---	---	---	---	
IDE	3416	broad.mit.edu	37	10	94219203	94219203	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94219203delA	uc001kia.2	-						IDE_uc010qnp.1_Intron|IDE_uc001khz.2_Intron	NM_004969	NP_004960	P14735	IDE_HUMAN	insulin-degrading enzyme isoform 1 precursor						beta-amyloid metabolic process|bradykinin catabolic process|interspecies interaction between organisms|sex differentiation	cell surface|extracellular space|soluble fraction	ATP binding|metalloendopeptidase activity|protein homodimerization activity|signal transducer activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3					Bacitracin(DB00626)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ACATCCCTAGAAAAAAATACT	0.413													3	3	---	---	---	---	
PDLIM1	9124	broad.mit.edu	37	10	97031214	97031214	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97031214delT	uc001kkh.2	-						PDLIM1_uc001kki.2_Intron|PDLIM1_uc009xuv.2_Intron|PDLIM1_uc001kkj.1_Intron	NM_020992	NP_066272	O00151	PDLI1_HUMAN	PDZ and LIM domain 1						response to oxidative stress	cytoplasm|cytoskeleton	zinc ion binding				0		Colorectal(252;0.083)		Epithelial(162;1.64e-06)|all cancers(201;3.71e-05)		aaaaaaaaaaTAGAGGGGAAA	0.224													4	2	---	---	---	---	
SORBS1	10580	broad.mit.edu	37	10	97146012	97146012	+	Intron	DEL	T	-	-	rs66603839		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97146012delT	uc001kkp.2	-						SORBS1_uc001kkk.2_5'Flank|SORBS1_uc001kkl.2_Intron|SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Intron|SORBS1_uc001kko.2_Intron|SORBS1_uc001kkq.2_Intron|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_Intron|SORBS1_uc001kku.2_Intron|SORBS1_uc001kkv.2_Intron|SORBS1_uc001kkw.2_Intron|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Intron	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3						focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		GGTTTTTTTGTTTTTTTTTTT	0.303													3	3	---	---	---	---	
SORBS1	10580	broad.mit.edu	37	10	97311169	97311169	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97311169delC	uc001kkw.2	-						SORBS1_uc001kku.2_Intron|SORBS1_uc001kkv.2_Intron|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Intron|SORBS1_uc001kkx.1_Intron	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3						focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		tccaggaaagccccaggaaaa	0.000													4	2	---	---	---	---	
ABCC2	1244	broad.mit.edu	37	10	101571087	101571087	+	Intron	DEL	A	-	-	rs112044854		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101571087delA	uc001kqf.2	+							NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),							apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	accatgactcaaaaaaaaaaa	0.214													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	102655495	102655495	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102655495delT								PAX2 (65798 upstream) : FAM178A (16831 downstream)																							TTGGTTTGTCTTTTTTTCTTT	0.428													4	2	---	---	---	---	
BTRC	8945	broad.mit.edu	37	10	103276728	103276728	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103276728delT	uc001kta.2	+						BTRC_uc001ktb.2_Intron|BTRC_uc001ktc.2_Intron	NM_033637	NP_378663	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing protein						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)		GTTTGGGAGGTTTTCATTATT	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	110887461	110887461	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:110887461delG								None (None upstream) : XPNPEP1 (737063 downstream)																							TGTTTAGGTTGGAAAACAACC	0.279													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	111421380	111421381	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:111421380_111421381insC								None (None upstream) : XPNPEP1 (203143 downstream)																							GGCTGTCAAAGCCCCCCAGCCC	0.564													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	118628975	118628975	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118628975delA	uc001lcw.2	+											SubName: Full=Putative uncharacterized protein C10orf134;																		AGCTGAAGACAAAAAAAAGAG	0.423													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	119573298	119573298	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:119573298delT								EMX2 (264242 upstream) : RAB11FIP2 (191131 downstream)																							TTGAAACATGTTTTTTTTGCC	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	122816705	122816705	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:122816705delT								WDR11 (147670 upstream) : FGFR2 (421140 downstream)																							ATCCCAGGAATTTTTTTCCTG	0.343													4	2	---	---	---	---	
TACC2	10579	broad.mit.edu	37	10	123975457	123975457	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:123975457delC	uc001lfv.2	+						TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Intron|TACC2_uc010qtv.1_Intron|TACC2_uc001lfx.2_Intron|TACC2_uc001lfy.2_Intron|TACC2_uc001lfz.2_Intron|TACC2_uc001lga.2_Intron|TACC2_uc009xzy.2_Intron|TACC2_uc001lgb.2_Intron|TACC2_uc010qtw.1_Intron	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing							microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				CAGATAGATTCCATTTCTTCT	0.453													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	125060211	125060212	+	IGR	DEL	TT	-	-	rs71484515		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:125060211_125060212delTT								BUB3 (135325 upstream) : GPR26 (365659 downstream)																							ttgatttgtgtttttttttttt	0.168													4	2	---	---	---	---	
OAT	4942	broad.mit.edu	37	10	126097758	126097758	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126097758delA	uc001lhp.2	-						OAT_uc001lhq.2_Intron|OAT_uc001lhr.2_Intron	NM_000274	NP_000265	P04181	OAT_HUMAN	ornithine aminotransferase precursor						cellular amino acid biosynthetic process|visual perception	mitochondrial matrix	ornithine-oxo-acid transaminase activity|protein binding|pyridoxal phosphate binding				0		all_lung(145;0.0271)|Lung NSC(174;0.0436)|Colorectal(57;0.102)|all_neural(114;0.116)			L-Ornithine(DB00129)|Pyridoxal Phosphate(DB00114)	CACATTTAACAAAAATAACAC	0.249													4	2	---	---	---	---	
DHX32	55760	broad.mit.edu	37	10	127579107	127579108	+	Intron	DEL	AT	-	-	rs75818244		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127579107_127579108delAT	uc001ljg.1	-							NM_018180	NP_060650	Q7L7V1	DHX32_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32							mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				CTTTTTAAAAATAAAAAAGGTC	0.238													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	128081773	128081774	+	IGR	DEL	TT	-	-	rs78189272		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128081773_128081774delTT								ADAM12 (4646 upstream) : C10orf90 (31802 downstream)																							ttagtgactcttttttttttat	0.005													4	2	---	---	---	---	
C10orf90	118611	broad.mit.edu	37	10	128327447	128327447	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128327447delC	uc010qum.1	-						C10orf90_uc009yao.2_Intron	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611											ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		cagctgttgacctcaactgtc	0.000													4	2	---	---	---	---	
FAM196A	642938	broad.mit.edu	37	10	128934616	128934617	+	3'UTR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128934616_128934617delTG	uc001lju.1	-	3					DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_3'UTR|FAM196A_uc001ljv.1_3'UTR|FAM196A_uc009yap.1_3'UTR	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938											ovary(2)	2						GGTTAGCCACTGTGTGTTTGGC	0.441													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	130167619	130167619	+	IGR	DEL	A	-	-	rs145541095	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:130167619delA								MKI67 (243151 upstream) : None (None downstream)																							ATCATTTGTTAAAAAAAATGT	0.498													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	135501222	135501223	+	IGR	DEL	CC	-	-	rs111504541		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135501222_135501223delCC								LOC653544 (6029 upstream) : None (None downstream)																							tttggcagagcctagacaaggg	0.000													4	2	---	---	---	---	
KCNQ1	3784	broad.mit.edu	37	11	2850545	2850545	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:2850545delA	uc001lwn.2	+						KCNQ1_uc001lwo.2_Intron	NM_000218	NP_000209	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like						blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	atcccagaagaaaaaaaaaat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	4934180	4934180	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4934180delA								OR51A7 (4644 upstream) : OR51G2 (1769 downstream)																							attggaaaagaaaaaaaaaac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	6850266	6850266	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6850266delA								OR6A2 (33127 upstream) : OR10A5 (16648 downstream)																							TTGCTATCATAAAAGTATTCA	0.284													4	2	---	---	---	---	
OR5E1P	26343	broad.mit.edu	37	11	7870650	7870650	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7870650delT	uc001mfr.2	+	1	53	c.53delT	c.(52-54)ATTfs	p.I18fs		NR_027711				SubName: Full=HCG1641819; SubName: Full=Seven transmembrane helix receptor;												0						TACACAGCTATTATGACGCAG	0.507													4	2	---	---	---	---	
DENND5A	23258	broad.mit.edu	37	11	9181431	9181431	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:9181431delT	uc001mhl.2	-						DENND5A_uc001mhk.2_Intron|DENND5A_uc010rbw.1_Intron|DENND5A_uc010rbx.1_Intron	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1											liver(1)	1						ttCCACTGGGTTTTTAAATAT	0.174													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	10414740	10414740	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10414740delT	uc009yfv.1	+											Homo sapiens EST AI652043 alternate transcript 1 mRNA sequence.																		ATGTGGGCTGTTTTCTTGGGG	0.463													4	2	---	---	---	---	
MICALCL	84953	broad.mit.edu	37	11	12307473	12307473	+	5'Flank	DEL	T	-	-	rs35359499		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:12307473delT	uc001mkg.1	+							NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like						cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		TGGCCCTGCCTGTGTGCACAT	0.582													0	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	13112120	13112120	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:13112120delT								RASSF10 (79473 upstream) : ARNTL (187205 downstream)																							cctcttgccctttctggccta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	15834075	15834076	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:15834075_15834076insT								INSC (565323 upstream) : SOX6 (153920 downstream)																							agctttttagattttttttaaa	0.000													4	2	---	---	---	---	
KCNC1	3746	broad.mit.edu	37	11	17803886	17803887	+	3'UTR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:17803886_17803887insA	uc009yhc.1	+	4					KCNC1_uc001mnl.1_3'UTR	NM_001112741	NP_001106212	P48547	KCNC1_HUMAN	Shaw-related voltage-gated potassium channel							voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)	1						CGTGGAAACTGAGAACTTTGCT	0.490													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	23700076	23700077	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:23700076_23700077insA								SVIP (848694 upstream) : LUZP2 (818479 downstream)																							AGATAGCAATGAAAAAAAAATA	0.327													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	25725214	25725215	+	IGR	INS	-	AT	AT	rs149073177	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:25725214_25725215insAT								LUZP2 (621032 upstream) : ANO3 (485614 downstream)																							TCATTGTGCCAATGTTATATCA	0.287													4	2	---	---	---	---	
ANO3	63982	broad.mit.edu	37	11	26632304	26632304	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:26632304delT	uc001mqt.3	+						ANO3_uc010rdr.1_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C							chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						aggtattcaattttaggtcct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	27161166	27161166	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:27161166delT								BBOX1 (11812 upstream) : CCDC34 (198895 downstream)																							ATGATCCAGATTTTTTTTCCT	0.254													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	30118063	30118063	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30118063delT								KCNA4 (79575 upstream) : FSHB (134500 downstream)																							GTTTCCTGGATTTTTTTTTAA	0.303													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	30156133	30156134	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30156133_30156134insC								KCNA4 (117645 upstream) : FSHB (96429 downstream)																							ACCAGCACTTTCCCCTTGCACT	0.450													4	2	---	---	---	---	
RCN1	5954	broad.mit.edu	37	11	31901523	31901523	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:31901523delT	uc010rea.1	+							NM_002901	NP_002892	Q15293	RCN1_HUMAN	reticulocalbin 1 precursor							endoplasmic reticulum lumen	calcium ion binding			large_intestine(1)	1	Lung SC(675;0.225)					CTAATTCCCATTTTGTTCTCT	0.358													4	2	---	---	---	---	
EHF	26298	broad.mit.edu	37	11	34678117	34678118	+	Intron	INS	-	CTTCTATG	CTTCTATG	rs150936345	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34678117_34678118insCTTCTATG	uc001mvr.1	+						EHF_uc009yke.1_Intron|EHF_uc009ykf.1_Intron	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor						cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			gggcctttgcacttctatgtta	0.000													4	2	---	---	---	---	
LDLRAD3	143458	broad.mit.edu	37	11	36103512	36103513	+	Intron	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:36103512_36103513insG	uc001mwk.1	+						LDLRAD3_uc010rey.1_Intron|LDLRAD3_uc010rez.1_Intron	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain							integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				accatttatcaggggctctacc	0.173													1	5	---	---	---	---	
RAG1	5896	broad.mit.edu	37	11	36612957	36612958	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:36612957_36612958insT	uc001mwt.2	+							NM_000448		P15918	RAG1_HUMAN	recombination activating gene 1						histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				TTTCCAGAAAATTTTTTTTTCC	0.262									Familial_Hemophagocytic_Lymphohistiocytosis				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	37044261	37044265	+	IGR	DEL	TTTAT	-	-	rs67676913		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:37044261_37044265delTTTAT								C11orf74 (347871 upstream) : None (None downstream)																							GCCTCCTAGATTTATTTTATGTTTG	0.224													4	2	---	---	---	---	
LRRC4C	57689	broad.mit.edu	37	11	40552247	40552247	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:40552247delG	uc001mxc.1	-						LRRC4C_uc001mxd.1_Intron	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor						regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				TAGATGCTGTGGAAGACACAG	0.368													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	41805323	41805324	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:41805323_41805324insT								LRRC4C (324000 upstream) : None (None downstream)																							TTATCCTGAAATTTAGCCCCCA	0.312													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	41968021	41968021	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:41968021delT								LRRC4C (486698 upstream) : None (None downstream)																							ATACATATACTTTTGATCATA	0.403													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	42125673	42125673	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:42125673delT								LRRC4C (644350 upstream) : None (None downstream)																							TTGTTGCTGCTTTTTTTTTTC	0.368													4	2	---	---	---	---	
MS4A6A	64231	broad.mit.edu	37	11	59947016	59947016	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59947016delT	uc001nor.2	-						MS4A6A_uc001noq.2_Intron|MS4A6A_uc001nos.3_Intron|MS4A6A_uc009ymv.2_Intron|MS4A6A_uc001not.2_Intron|MS4A6A_uc010rla.1_Intron|MS4A6A_uc010rlb.1_Intron	NM_152852	NP_690591	Q9H2W1	M4A6A_HUMAN	membrane-spanning 4-domains, subfamily A, member							integral to membrane	receptor activity				0						AATTCATGGATTTTTTTTTCG	0.323													4	2	---	---	---	---	
AHNAK	79026	broad.mit.edu	37	11	62264592	62264592	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62264592delG	uc001ntk.1	-							NM_024060	NP_076965	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 2						nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TCATTCCTGAGGTACAAGGAA	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	62837766	62837767	+	IGR	INS	-	T	T	rs139155014	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62837766_62837767insT								SLC22A8 (54455 upstream) : SLC22A24 (9647 downstream)																							gggttaaaaactaactatcgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	67892392	67892392	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67892392delT								CHKA (3534 upstream) : SUV420H1 (31115 downstream)																							CTTTGAGCCCTTTCAAAGATG	0.532													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	72251468	72251468	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72251468delT								CLPB (105784 upstream) : PDE2A (35718 downstream)																							ttccataggatttttttttaa	0.169													4	2	---	---	---	---	
P2RY2	5029	broad.mit.edu	37	11	72947358	72947358	+	3'UTR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72947358delA	uc001otj.2	+	3					P2RY2_uc001otk.2_3'UTR|P2RY2_uc001otl.2_3'UTR	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2						activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	tcttatggccaaattcaaact	0.000													4	2	---	---	---	---	
RPS3	6188	broad.mit.edu	37	11	75129480	75129480	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:75129480delA	uc001owi.2	+							NM_001005	NP_000996	P23396	RS3_HUMAN	ribosomal protein S3						activation of caspase activity|endocrine pancreas development|induction of apoptosis|negative regulation of DNA repair|negative regulation of NF-kappaB transcription factor activity|response to DNA damage stimulus|translational elongation|translational initiation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleus|ruffle membrane	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|endonuclease activity|iron-sulfur cluster binding|mRNA binding|NF-kappaB binding|protein kinase binding|structural constituent of ribosome				0						ATCAAGATGGAAAAAAGTTAT	0.313													4	2	---	---	---	---	
ANKRD42	338699	broad.mit.edu	37	11	82959339	82959342	+	3'UTR	DEL	ACAC	-	-	rs139976921		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:82959339_82959342delACAC	uc001ozz.1	+	10					ANKRD42_uc010rsv.1_3'UTR|ANKRD42_uc001paa.2_Intron|ANKRD42_uc001pab.1_Intron	NM_182603	NP_872409	Q8N9B4	ANR42_HUMAN	ankyrin repeat domain 42											skin(1)	1						ttaaaggaatacacacacacacac	0.088													3	4	---	---	---	---	
TMEM135	65084	broad.mit.edu	37	11	87001055	87001056	+	Intron	INS	-	C	C	rs141888069	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:87001055_87001056insC	uc001pch.2	+						TMEM135_uc010rtt.1_Intron|TMEM135_uc001pci.2_Intron	NM_022918	NP_075069	Q86UB9	TM135_HUMAN	transmembrane protein 135							integral to membrane					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				tggatattaatcccccctagga	0.045													4	2	---	---	---	---	
FAT3	120114	broad.mit.edu	37	11	92143510	92143511	+	Intron	DEL	GA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92143510_92143511delGA	uc001pdj.3	+							NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3						homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				gagagagacggagagagagaga	0.277										TCGA Ovarian(4;0.039)			4	2	---	---	---	---	
FAT3	120114	broad.mit.edu	37	11	92498638	92498638	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92498638delT	uc001pdj.3	+							NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3						homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				cattctgttctttttttttTC	0.343										TCGA Ovarian(4;0.039)			3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	93641379	93641380	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93641379_93641380insT								C11orf90 (57711 upstream) : HEPHL1 (112998 downstream)																							tggggactacattttgagacca	0.228													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	94252080	94252080	+	IGR	DEL	T	-	-	rs141768923		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94252080delT								ANKRD49 (19340 upstream) : PIWIL4 (24926 downstream)																							CCACTTTACAttttttttttt	0.219													2	5	---	---	---	---	
AMOTL1	154810	broad.mit.edu	37	11	94565023	94565023	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94565023delT	uc001pfb.2	+						AMOTL1_uc001pfc.2_Intron	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1							cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				GTTACAACCCTTTTTCTCCAG	0.468													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	94735374	94735374	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94735374delA								KDM4D (2700 upstream) : KDM4DL (23048 downstream)																							gtggaatgttaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	94739475	94739475	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94739475delC								KDM4D (6801 upstream) : KDM4DL (18947 downstream)																							TTGAGAAATTCCCCACTAGTC	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	97370011	97370011	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:97370011delA								None (None upstream) : None (None downstream)																							agaagcaaacaaaaaaaaaac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	105854731	105854731	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:105854731delA								GRIA4 (1912 upstream) : KIAA1826 (23899 downstream)																							ACAAGCCTAGAAGGAAAAGGA	0.363													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	109876760	109876760	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:109876760delT								C11orf87 (576922 upstream) : ZC3H12C (87166 downstream)																							cttttttaagtttttttttgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	112614056	112614056	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:112614056delA								PTS (473379 upstream) : NCAM1 (217939 downstream)																							CTCTTACAGGAAAACCAAGAC	0.269													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	113543855	113543856	+	IGR	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:113543855_113543856delAC								DRD2 (197442 upstream) : TMPRSS5 (14413 downstream)																							acacacacatacacacacacac	0.386													4	2	---	---	---	---	
DDX6	1656	broad.mit.edu	37	11	118630955	118630955	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118630955delA	uc001pub.2	-						DDX6_uc001pua.2_5'Flank|DDX6_uc001puc.2_Intron	NM_004397	NP_004388	P26196	DDX6_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|RNA-induced silencing complex|stress granule	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|RNA helicase activity			ovary(1)	1	all_hematologic(175;0.0839)	Renal(330;0.0183)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)|Hepatocellular(160;0.0893)|Breast(348;0.0979)|all_hematologic(192;0.103)		OV - Ovarian serous cystadenocarcinoma(223;3.39e-06)|BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Colorectal(284;0.0377)		CTTCTAGGGGAAAAAAAAAAT	0.308			T	IGH@	B-NHL								6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	119350293	119350293	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119350293delT	uc001pwo.2	+						uc001pwp.1_Intron					Homo sapiens cDNA FLJ40501 fis, clone TESTI2045171.																		aactttgttcttttttatggc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	119739852	119739852	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119739852delG								PVRL1 (140417 upstream) : TRIM29 (242143 downstream)																							aactgagccaggtgtgaactc	0.129													4	2	---	---	---	---	
TECTA	7007	broad.mit.edu	37	11	121006672	121006673	+	Intron	DEL	TT	-	-	rs67327604		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:121006672_121006673delTT	uc010rzo.1	+							NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor						cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TTTTATGTGCtttttttttttc	0.198													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	123771167	123771167	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123771167delT								TMEM225 (14827 upstream) : OR8D4 (5972 downstream)																							CTTCATTTGCTTTTTTTTTGT	0.274													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	124340911	124340911	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124340911delA								OR8B8 (29930 upstream) : OR8B12 (71709 downstream)																							GGATCTGTTGAAAACTGCTAG	0.517													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	124720410	124720411	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124720410_124720411delTG								C11orf61 (50111 upstream) : ROBO3 (14871 downstream)																							tgtgtgtgcatgtgtgtgtgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	127470042	127470042	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:127470042delA								KIRREL3 (596687 upstream) : ETS1 (858614 downstream)																							agggcagaggaagccagagag	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	128106234	128106234	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128106234delA								None (None upstream) : ETS1 (222422 downstream)																							GGAAAGAGTGAAAAGAATGGA	0.433													4	2	---	---	---	---	
TMEM45B	120224	broad.mit.edu	37	11	129691748	129691748	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129691748delT	uc001qfe.1	+							NM_138788	NP_620143	Q96B21	TM45B_HUMAN	transmembrane protein 45B							integral to membrane					0	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)		ttggggtgggttttttggcgg	0.000													4	2	---	---	---	---	
NTM	50863	broad.mit.edu	37	11	131698835	131698836	+	Intron	DEL	TC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:131698835_131698836delTC	uc010sci.1	+						NTM_uc001qgm.2_Intron|NTM_uc010sch.1_Intron	NM_001144058	NP_001137530	Q9P121	NTRI_HUMAN	neurotrimin isoform 3						cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						ATCTTTTATTtctctctctctc	0.198													4	2	---	---	---	---	
GLB1L3	112937	broad.mit.edu	37	11	134183013	134183013	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134183013delA	uc009zdf.2	+						GLB1L3_uc001qho.3_Intron	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3						carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		CCAAGTCCTGAGCCTGTCCTC	0.577													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	134800720	134800721	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134800720_134800721insA								B3GAT1 (518908 upstream) : None (None downstream)																							GACAACTGTTGAAAAAAAAATG	0.381													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	565141	565141	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:565141delT								CCDC77 (13337 upstream) : B4GALNT3 (4402 downstream)																							GGTGACGGAGTTGGGGGGAGG	0.473													4	2	---	---	---	---	
WNK1	65125	broad.mit.edu	37	12	882642	882642	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:882642delT	uc001qio.3	+						WNK1_uc001qin.2_Intron|WNK1_uc001qip.3_Intron	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1						intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			TCCCAATCAGTTTTTTTCCCA	0.279													4	2	---	---	---	---	
FBXL14	144699	broad.mit.edu	37	12	1681796	1681796	+	Intron	DEL	C	-	-	rs71441844		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1681796delC	uc001qjh.2	-						WNT5B_uc009zdq.2_5'Flank	NM_152441	NP_689654	Q8N1E6	FXL14_HUMAN	F-box and leucine-rich repeat protein 14							cytoplasm				ovary(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00115)			GTCGGGGAAGCGGGGGGGCAG	0.353													5	5	---	---	---	---	
DYRK4	8798	broad.mit.edu	37	12	4672052	4672052	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4672052delA	uc009zeh.1	+							NM_003845	NP_003836	Q9NR20	DYRK4_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation							Golgi apparatus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|skin(1)	3			Colorectal(7;0.103)			ATCTTTCCTTAAAAAAGAGAT	0.448													4	2	---	---	---	---	
VWF	7450	broad.mit.edu	37	12	6060342	6060342	+	Intron	DEL	A	-	-	rs58935006	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6060342delA	uc001qnn.1	-						VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein						blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	TTGTGCTCACAAACACAAGCA	0.388													4	2	---	---	---	---	
CD4	920	broad.mit.edu	37	12	6897707	6897707	+	5'Flank	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6897707delC	uc001qqv.1	+						CD4_uc009zez.1_5'Flank|CD4_uc009zfa.1_5'Flank|CD4_uc009zfb.1_5'Flank|CD4_uc010sfj.1_5'Flank|CD4_uc009zfc.1_5'Flank|CD4_uc010sfk.1_5'Flank|CD4_uc010sfl.1_5'Flank	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor						cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				ccactcccagcCCCACTTTTT	0.149													4	2	---	---	---	---	
FAM66C	440078	broad.mit.edu	37	12	8346317	8346320	+	Intron	DEL	TGTG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8346317_8346320delTGTG	uc001que.3	+						FAM66C_uc001quf.3_Intron|FAM66C_uc009zgc.2_Intron|FAM66C_uc001qug.3_Intron	NR_026788				Homo sapiens cDNA FLJ38982 fis, clone NT2RI2005239.												0						tgtgtgactttgtgtgtgtgtgtg	0.275													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	9181462	9181462	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9181462delC								KLRG1 (18124 upstream) : LOC144571 (36311 downstream)																							ACTTGTGTGGCCTTGCATTCG	0.478													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	11596746	11596746	+	IGR	DEL	A	-	-	rs35092836		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11596746delA								PRB2 (48248 upstream) : ETV6 (206042 downstream)																							CACAGGTGGCAAAAAAAAAAG	0.393													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	14199856	14199856	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14199856delA								GRIN2B (66834 upstream) : ATF7IP (318755 downstream)																							acacacacacacacCCTACAG	0.388													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	14199858	14199858	+	IGR	DEL	A	-	-	rs10128814	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14199858delA								GRIN2B (66836 upstream) : ATF7IP (318753 downstream)																							acacacacacacCCTACAGCT	0.393													5	3	---	---	---	---	
ATF7IP	55729	broad.mit.edu	37	12	14538833	14538833	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14538833delT	uc001rbw.2	+						ATF7IP_uc010shs.1_Intron|ATF7IP_uc001rbu.2_Intron|ATF7IP_uc001rbv.1_Intron|ATF7IP_uc001rbx.2_Intron|ATF7IP_uc010sht.1_Intron|ATF7IP_uc001rby.3_Intron	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting						DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						GTCCAAAATCTTTTTTTTTGG	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	18054098	18054099	+	IGR	INS	-	T	T	rs144509647	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:18054098_18054099insT								None (None upstream) : RERGL (179705 downstream)																							actgcccaagattttttttctg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	18356708	18356708	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:18356708delA								RERGL (113594 upstream) : PIK3C2G (57766 downstream)																							GGAGGAAAAGAAAAAAAAATA	0.169													4	2	---	---	---	---	
ABCC9	10060	broad.mit.edu	37	12	21975250	21975250	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21975250delT	uc001rfi.1	-						ABCC9_uc001rfh.2_Intron|ABCC9_uc001rfj.1_Intron	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9						defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CTAAAAACTGTTTTTTTTTTT	0.308													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	22723136	22723136	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22723136delA								KIAA0528 (25684 upstream) : ETNK1 (54940 downstream)																							tggctgagagaaaaaaaaaga	0.020													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	23456613	23456613	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:23456613delA								ETNK1 (613006 upstream) : SOX5 (228619 downstream)																							ATTTGATTTTAAaaaatgccc	0.010													4	2	---	---	---	---	
SOX5	6660	broad.mit.edu	37	12	23698809	23698809	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:23698809delA	uc001rfw.2	-						SOX5_uc001rfx.2_Intron|SOX5_uc001rfy.2_Intron|SOX5_uc001rfv.2_Intron|SOX5_uc010siv.1_Intron|SOX5_uc010siw.1_Intron|SOX5_uc001rfz.1_Intron	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a						transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						tcctcatctcaaaaaaaaaaa	0.010													2	5	---	---	---	---	
RASSF8	11228	broad.mit.edu	37	12	26216174	26216177	+	Intron	DEL	TAAA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:26216174_26216177delTAAA	uc001rgx.2	+						RASSF8_uc001rgy.2_Intron|RASSF8_uc001rgz.2_Intron|RASSF8_uc009zjd.1_Intron|RASSF8_uc009zje.1_Intron	NM_007211	NP_009142	Q8NHQ8	RASF8_HUMAN	Ras association (RalGDS/AF-6) domain family						signal transduction						0	Colorectal(261;0.0847)					TCACAAAATTTAAATAATCTATCT	0.270													5	10	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	26423305	26423306	+	IGR	DEL	AC	-	-	rs150828622		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:26423305_26423306delAC								SSPN (17452 upstream) : ITPR2 (64981 downstream)																							AAAATTCACTacacacacacac	0.322													4	3	---	---	---	---	
C12orf70	341346	broad.mit.edu	37	12	27651634	27651634	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:27651634delA	uc010sjq.1	+							NM_001145010	NP_001138482	A6NFE2	CL070_HUMAN	hypothetical protein LOC341346							integral to membrane					0						GTCAACTGTGAAAAAAaaata	0.159													3	3	---	---	---	---	
TMTC1	83857	broad.mit.edu	37	12	29872355	29872355	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29872355delT	uc001rjb.2	-						TMTC1_uc001rja.2_Intron|TMTC1_uc001rjc.1_Intron	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat							integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					ccacttgaagtttttttggaa	0.000													4	2	---	---	---	---	
TMTC1	83857	broad.mit.edu	37	12	29905776	29905776	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29905776delA	uc001rjb.2	-						TMTC1_uc001rjc.1_Intron	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat							integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					catggaaatgaaaagtgccaa	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	33798093	33798093	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:33798093delT								SYT10 (205339 upstream) : ALG10 (377123 downstream)																							GAAAGCATAATTTCAGATCCC	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	33905808	33905809	+	IGR	DEL	TC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:33905808_33905809delTC								SYT10 (313054 upstream) : ALG10 (269407 downstream)																							GCTAGTGTGGTCAGAAGAAGAG	0.455													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	37907601	37907601	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:37907601delG								None (None upstream) : ALG10B (802956 downstream)																							CACAAAACCTGGTCTCTTTCC	0.378													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	38580906	38580907	+	IGR	DEL	AA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38580906_38580907delAA								None (None upstream) : ALG10B (129650 downstream)																							taaatattataagagctaaaga	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	38614577	38614578	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38614577_38614578insT								None (None upstream) : ALG10B (95979 downstream)																							caaagacttcatttcctaatct	0.094													4	2	---	---	---	---	
CPNE8	144402	broad.mit.edu	37	12	39168414	39168415	+	Intron	INS	-	T	T	rs145008772	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39168414_39168415insT	uc001rls.1	-							NM_153634	NP_705898	Q86YQ8	CPNE8_HUMAN	copine VIII											pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)				GGACTGGAAGATTTTTTTTTTA	0.302													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	39458292	39458292	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39458292delT								CPNE8 (158872 upstream) : KIF21A (228739 downstream)																							TCCATTTGGCTTTTTTTTTTT	0.358													3	3	---	---	---	---	
LRRK2	120892	broad.mit.edu	37	12	40752821	40752823	+	Intron	DEL	TTG	-	-	rs35743980		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:40752821_40752823delTTG	uc001rmg.3	+						LRRK2_uc009zjw.2_Intron|LRRK2_uc001rmi.2_Intron	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2						activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				ttcagctactttgttgttgttgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	41078545	41078545	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41078545delT								LRRK2 (315461 upstream) : CNTN1 (7813 downstream)																							gtatgtggtattttttttttg	0.100													4	2	---	---	---	---	
PPHLN1	51535	broad.mit.edu	37	12	42663032	42663032	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42663032delA	uc001rmy.2	+							NM_201439	NP_958847	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 3						keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		CTAATACTTTAAAAAAAAAAA	0.254													4	2	---	---	---	---	
ADAMTS20	80070	broad.mit.edu	37	12	43911924	43911924	+	Intron	DEL	C	-	-	rs1510519	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43911924delC	uc010skx.1	-							NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with							proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CACCTTTTTTCTTAATGAAGA	0.274													4	2	---	---	---	---	
TMEM117	84216	broad.mit.edu	37	12	44615016	44615017	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:44615016_44615017insT	uc001rod.2	+						TMEM117_uc001roe.2_Intron|TMEM117_uc009zkc.2_Intron	NM_032256	NP_115632	Q9H0C3	TM117_HUMAN	transmembrane protein 117							endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		TTTGGGCCCAATTTTTAAAATA	0.252													4	2	---	---	---	---	
ANO6	196527	broad.mit.edu	37	12	45791810	45791810	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:45791810delA	uc001roo.2	+						ANO6_uc010sld.1_Intron|ANO6_uc010sle.1_Intron|ANO6_uc010slf.1_Intron|ANO6_uc010slg.1_Intron	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a						activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						CTTTAGAAGTAAAAACGTTTT	0.169													4	2	---	---	---	---	
SLC38A1	81539	broad.mit.edu	37	12	46621967	46621968	+	Intron	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:46621967_46621968delAC	uc001rpa.2	-						SLC38A1_uc001rpb.2_Intron|SLC38A1_uc001rpc.2_Intron|SLC38A1_uc001rpd.2_Intron|SLC38A1_uc001rpe.2_Intron|SLC38A1_uc010slh.1_Intron|SLC38A1_uc009zkj.1_Intron	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1						cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			ATGTTAATTTACACACACACAA	0.361													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	46955382	46955382	+	IGR	DEL	A	-	-	rs112400013		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:46955382delA								SLC38A2 (188737 upstream) : SLC38A4 (203162 downstream)																							aaaaaCAACCAAAAAAAAAAA	0.030													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	47887216	47887216	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47887216delC								FAM113B (256775 upstream) : RPAP3 (168500 downstream)																							aataaataggcccccaaacta	0.100													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	47984653	47984653	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47984653delA								FAM113B (354212 upstream) : RPAP3 (71063 downstream)																							CGACTAGTTGAAAAAAGATGT	0.348													4	2	---	---	---	---	
LIMA1	51474	broad.mit.edu	37	12	50605755	50605756	+	Intron	INS	-	C	C	rs141978158	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50605755_50605756insC	uc001rwj.3	-						LIMA1_uc001rwh.3_Intron|LIMA1_uc001rwi.3_Intron|LIMA1_uc001rwk.3_Intron|LIMA1_uc010smr.1_Intron|LIMA1_uc010sms.1_Intron	NM_016357	NP_057441	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1 isoform b						actin filament bundle assembly|negative regulation of actin filament depolymerization|ruffle organization	cytoplasm|focal adhesion|stress fiber	actin filament binding|actin monomer binding|zinc ion binding			ovary(1)	1						GCCTGGCCTCACCCACCCTGAA	0.411													3	4	---	---	---	---	
KRT5	3852	broad.mit.edu	37	12	52915629	52915629	+	5'Flank	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52915629delG	uc001san.2	-						KRT5_uc009zmh.2_5'Flank	NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5						epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		TCAGAGTTTCGGGGGCGCCCT	0.577													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	53545606	53545606	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53545606delT								SOAT2 (27284 upstream) : CSAD (5842 downstream)																							tccatgctcctgaactgggcc	0.000													4	2	---	---	---	---	
R3HDM2	22864	broad.mit.edu	37	12	57738940	57738940	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57738940delA	uc001snt.2	-						R3HDM2_uc001sns.2_Intron|R3HDM2_uc009zpo.1_Intron	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2							nucleus	nucleic acid binding			ovary(2)	2						ttattgggggaaaaaaaaacc	0.000													4	2	---	---	---	---	
R3HDM2	22864	broad.mit.edu	37	12	57745706	57745706	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57745706delA	uc001snt.2	-						R3HDM2_uc001sns.2_Intron|R3HDM2_uc009zpo.1_Intron	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2							nucleus	nucleic acid binding			ovary(2)	2						agtaagacataaaaaacaaag	0.025													4	2	---	---	---	---	
R3HDM2	22864	broad.mit.edu	37	12	57761828	57761828	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57761828delT	uc001snt.2	-						R3HDM2_uc001sns.2_Intron|R3HDM2_uc009zpo.1_Intron	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2							nucleus	nucleic acid binding			ovary(2)	2						tcttttgtgattttttttttg	0.000													4	2	---	---	---	---	
DCTN2	10540	broad.mit.edu	37	12	57939282	57939282	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57939282delA	uc001som.1	-						DCTN2_uc009zpu.1_Intron|DCTN2_uc009zpv.1_Intron|DCTN2_uc009zpw.1_Intron|DCTN2_uc001soo.1_Intron|DCTN2_uc001son.1_Intron|DCTN2_uc001sop.1_Intron|DCTN2_uc001soq.1_Intron|DCTN2_uc009zpx.1_Intron	NM_006400	NP_006391	Q13561	DCTN2_HUMAN	dynactin 2						cell proliferation|G2/M transition of mitotic cell cycle|mitosis	centrosome|cytosol|dynactin complex|dynein complex|kinetochore|membrane|microtubule|vesicle	motor activity|protein binding			ovary(1)	1						TCTCGGATCTAAAAATGCAAC	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	59948573	59948573	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:59948573delT								LRIG3 (634311 upstream) : SLC16A7 (41275 downstream)																							acccttgtgattacactaggt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	61847074	61847075	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:61847074_61847075insC								None (None upstream) : FAM19A2 (254968 downstream)																							ATTACACTTTATCCTTTTTGTT	0.332													4	2	---	---	---	---	
FAM19A2	338811	broad.mit.edu	37	12	62205778	62205779	+	Intron	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:62205778_62205779insC	uc001sqw.2	-						FAM19A2_uc001sqv.2_Intron|FAM19A2_uc001sqx.2_Intron|FAM19A2_uc001sqy.2_Intron	NM_178539	NP_848634	Q8N3H0	F19A2_HUMAN	family with sequence similarity 19 (chemokine							cytoplasm				ovary(1)	1			GBM - Glioblastoma multiforme(1;0.00484)	GBM - Glioblastoma multiforme(3;0.02)		CTATCCTCTTTCCCCTAtgtgg	0.178													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	65390081	65390081	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:65390081delA								GNS (236855 upstream) : WIF1 (54326 downstream)																							CATTTGGGAGAAAAGGATGGG	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	67577269	67577269	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:67577269delT								GRIP1 (379375 upstream) : CAND1 (85792 downstream)																							aatatacctatttttttttca	0.000													4	2	---	---	---	---	
MDM2	4193	broad.mit.edu	37	12	69199501	69199501	+	5'Flank	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69199501delT	uc001sui.2	+						MDM2_uc009zri.2_5'Flank|MDM2_uc009zqx.2_5'Flank|MDM2_uc009zqw.2_5'Flank|MDM2_uc001suk.2_5'Flank	NM_002392	NP_002383	Q00987	MDM2_HUMAN	mouse double minute 2 homolog isoform MDM2						cellular response to hypoxia|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|establishment of protein localization|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein complex assembly|protein destabilization|protein localization to nucleus|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to antibiotic|synaptic transmission	cytosol|endocytic vesicle membrane|insoluble fraction|nucleolus|nucleoplasm|plasma membrane|protein complex	enzyme binding|identical protein binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|central_nervous_system(1)	3	all_cancers(1;8.46e-121)|all_epithelial(5;3.21e-36)|Lung NSC(4;2.16e-33)|all_lung(4;3.03e-31)|Glioma(1;1.9e-09)|Breast(13;1.59e-06)|all_neural(1;1.03e-05)|Melanoma(1;0.0171)|Renal(347;0.0684)		all cancers(2;8.67e-65)|GBM - Glioblastoma multiforme(2;8.89e-62)|BRCA - Breast invasive adenocarcinoma(5;2.43e-08)|Lung(24;1.5e-05)|LUAD - Lung adenocarcinoma(15;8.5e-05)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			CCCTCCAGACTTTTTTTGGTA	0.423			A		sarcoma|glioma|colorectal|other								4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	84510960	84510961	+	IGR	DEL	CT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:84510960_84510961delCT								TMTC2 (982897 upstream) : SLC6A15 (742308 downstream)																							ctctctgtccctctctctctcC	0.173													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	85978578	85978579	+	IGR	INS	-	A	A	rs34648276		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:85978578_85978579insA								ALX1 (283019 upstream) : RASSF9 (219752 downstream)																							TGACAAATGACAAAAAAAAAAA	0.198													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	86019444	86019444	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:86019444delA								ALX1 (323885 upstream) : RASSF9 (178887 downstream)																							TGGAGTAGTTAAAAAACTGCC	0.219													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	86041583	86041584	+	IGR	INS	-	AA	AA	rs151128636	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:86041583_86041584insAA								ALX1 (346024 upstream) : RASSF9 (156747 downstream)																							TTTATGGAATTAAAAAAAAAAG	0.292													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	88600834	88600834	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88600834delT								TMTC3 (7171 upstream) : KITLG (285735 downstream)																							tgcctccacattttcaagtat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	88824330	88824330	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88824330delA								TMTC3 (230667 upstream) : KITLG (62239 downstream)																							gtcttaacttaaaaaaataac	0.040													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	89642235	89642235	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:89642235delA								KITLG (667997 upstream) : DUSP6 (99604 downstream)																							TGAAGCTGTGAAAAAAAAATA	0.333													4	2	---	---	---	---	
POC1B	282809	broad.mit.edu	37	12	89866277	89866277	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:89866277delT	uc001tbc.2	-						POC1B_uc001tba.2_Intron|POC1B_uc001tbb.2_Intron|POC1B_uc010sun.1_Intron|POC1B_uc009zsp.2_Intron|POC1B_uc009zsq.2_Intron	NM_172240	NP_758440	Q8TC44	POC1B_HUMAN	WD repeat domain 51B						cell projection organization	centriole|microtubule basal body				ovary(1)	1						ACCAAGTTGCTTTTTTCCTTT	0.338													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	90138855	90138855	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:90138855delT								LOC338758 (33127 upstream) : None (None downstream)																							ccacttcacctttttttgttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	97764559	97764560	+	IGR	DEL	TT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:97764559_97764560delTT								NEDD1 (417098 upstream) : RMST (94239 downstream)																							ggcatttgtcttttttttttta	0.050													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	98423817	98423817	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:98423817delT								RMST (465024 upstream) : LOC100128191 (482936 downstream)																							acatactatctttttttttct	0.000													4	2	---	---	---	---	
ANKS1B	56899	broad.mit.edu	37	12	99279821	99279822	+	Intron	DEL	GA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:99279821_99279822delGA	uc001tge.1	-						ANKS1B_uc001tgf.1_Intron|ANKS1B_uc001tgk.2_Intron|ANKS1B_uc010svd.1_Intron|ANKS1B_uc001tgd.1_Intron|ANKS1B_uc010sve.1_Intron|ANKS1B_uc001tgh.3_Intron|ANKS1B_uc001tgi.2_Intron|ANKS1B_uc009ztr.2_Intron|ANKS1B_uc001tgj.2_Intron|ANKS1B_uc009ztp.2_Intron|ANKS1B_uc010svf.1_Intron|ANKS1B_uc001tgg.3_Intron|ANKS1B_uc010svg.1_Intron|ANKS1B_uc009zts.1_Intron|ANKS1B_uc001tgm.1_Intron	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a							Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		gggagggagggagagagagaga	0.000													4	2	---	---	---	---	
ANO4	121601	broad.mit.edu	37	12	101185568	101185568	+	5'Flank	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101185568delC	uc010svm.1	+						ANO4_uc010svl.1_Intron|ANO4_uc001thw.2_5'Flank	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4							chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						CCTCCCTGAGCCCCAGGTGCC	0.502										HNSCC(74;0.22)			4	2	---	---	---	---	
C12orf48	55010	broad.mit.edu	37	12	102544892	102544893	+	Intron	INS	-	A	A	rs145644863	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:102544892_102544893insA	uc001tjf.2	+						C12orf48_uc001tje.2_Intron|C12orf48_uc001tjg.2_Intron|C12orf48_uc010swa.1_Intron|C12orf48_uc001tjh.2_Intron|C12orf48_uc010swb.1_Intron|C12orf48_uc001tji.2_Intron|C12orf48_uc009zuc.2_Intron|C12orf48_uc001tjj.2_Intron|C12orf48_uc001tjk.2_Intron|C12orf48_uc009zud.2_Intron	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010						response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						TGAGTTAGCTGCAACACACGTG	0.426													5	3	---	---	---	---	
CHST11	50515	broad.mit.edu	37	12	105140170	105140171	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105140170_105140171insT	uc001tkx.1	+						CHST11_uc001tky.2_Intron	NM_018413	NP_060883	Q9NPF2	CHSTB_HUMAN	carbohydrate sulfotransferase 11						chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 4-sulfotransferase activity|N-acetylgalactosamine 4-O-sulfotransferase activity				0						CTTTCTGCTCATTTTTTTCTGC	0.460													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	107672923	107672923	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107672923delT								CRY1 (185325 upstream) : BTBD11 (39274 downstream)																							ttatatttgctttttttaaaa	0.000													4	2	---	---	---	---	
WSCD2	9671	broad.mit.edu	37	12	108544423	108544423	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108544423delC	uc001tms.2	+						WSCD2_uc001tmt.2_Intron	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2							integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						aggagagaggcaggcaggacc	0.219													4	2	---	---	---	---	
MYO1H	283446	broad.mit.edu	37	12	109881128	109881131	+	Intron	DEL	TGTA	-	-	rs10545295		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109881128_109881131delTGTA	uc010sxo.1	+						MYO1H_uc010sxn.1_Intron			Q8N1T3	MYO1H_HUMAN	SubName: Full=cDNA FLJ54829, moderately similar to Myosin Ic; SubName: Full=Myosin IH, isoform CRA_a;							myosin complex	motor activity				0						tatatatgtgtgtatgtatgtgta	0.029													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	111240903	111240903	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111240903delT								PPP1CC (60146 upstream) : CCDC63 (43908 downstream)																							TTCTTCTACATTTTTTTTTTT	0.259													4	2	---	---	---	---	
CUX2	23316	broad.mit.edu	37	12	111593070	111593070	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111593070delG	uc001tsa.1	+						CUX2_uc001tsb.1_Intron	NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						ggtacaaaaagggtctctagt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	113964387	113964387	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113964387delT								LHX5 (54510 upstream) : RBM19 (290156 downstream)																							GCAGTGGGCATTTTTATATTC	0.383													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	114047753	114047754	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:114047753_114047754delTG								LHX5 (137876 upstream) : RBM19 (206789 downstream)																							tgtgtgtgcctgtgtgtgtgtg	0.450													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	116194179	116194179	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116194179delT								None (None upstream) : MED13L (202204 downstream)																							TATTTCCTCCTTTTTTTTTCC	0.358													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	116226145	116226145	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116226145delA								None (None upstream) : MED13L (170238 downstream)																							AAAAGGAAACATATGAATTCT	0.408													4	2	---	---	---	---	
RFC5	5985	broad.mit.edu	37	12	118459013	118459013	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118459013delT	uc001twq.2	+						RFC5_uc010syx.1_Intron|RFC5_uc010syy.1_Intron|RFC5_uc010syz.1_Intron|RFC5_uc009zwr.2_Intron	NM_007370	NP_031396	P40937	RFC5_HUMAN	replication factor C 5 isoform 1						cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AGCAAGtttgttttttttttc	0.169													4	3	---	---	---	---	
SRRM4	84530	broad.mit.edu	37	12	119466097	119466097	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:119466097delC	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						ttgactgtgtccccacccaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	119747617	119747618	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:119747617_119747618insC								LOC144742 (6432 upstream) : CCDC60 (24899 downstream)																							ccagaccttgtcccccccgcaa	0.109													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	124707400	124707401	+	IGR	INS	-	C	C	rs79698394	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124707400_124707401insC								ZNF664 (207433 upstream) : FAM101A (66309 downstream)																							ATTGGTAaaaaaaacaaacaaa	0.376													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	127480412	127480412	+	Intron	DEL	A	-	-	rs35959849		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:127480412delA	uc001uho.2	-											Homo sapiens cDNA clone IMAGE:4829480.																		TGCACTGAGGAAAAAAAATAA	0.284													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	130568720	130568720	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130568720delA								LOC100190940 (41833 upstream) : FZD10 (78312 downstream)																							tctcgcttccaaatcagagtc	0.000													4	2	---	---	---	---	
RIMBP2	23504	broad.mit.edu	37	12	130892569	130892569	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130892569delT	uc001uil.2	-							NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2							cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TATTCTTATATTTTTGCTGTA	0.498													4	2	---	---	---	---	
GPR133	283383	broad.mit.edu	37	12	131500140	131500145	+	Intron	DEL	GGGGAC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:131500140_131500145delGGGGAC	uc001uit.3	+						GPR133_uc010tbm.1_Intron	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		gagatggagaggggactggagttgga	0.092													4	2	---	---	---	---	
EP400NL	347918	broad.mit.edu	37	12	132593558	132593558	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132593558delT	uc001ujw.1	+											RecName: Full=EP400 N-terminal-like protein;												0						GATGTTTCTCTTTTTTTTCCC	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	22821033	22821033	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:22821033delG	uc001uoi.2	+						uc001uoj.2_Intron					Homo sapiens cDNA FLJ30283 fis, clone BRACE2002807.																		CAAGATGAGTGGGAGATTTCA	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	23035846	23035846	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23035846delT								FGF9 (757206 upstream) : SGCG (719214 downstream)																							ACCTTTCAAATTTTTTTTTTG	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	24930597	24930598	+	IGR	INS	-	ATT	ATT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24930597_24930598insATT								C1QTNF9 (33932 upstream) : PARP4 (64477 downstream)																							cacacatgttcacacacacacc	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	25916663	25916663	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25916663delT								NUPL1 (103 upstream) : ATP8A2 (29546 downstream)																							CATCTTGCTCTTTTTTAAACA	0.294													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	27816935	27816938	+	IGR	DEL	GTGT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:27816935_27816938delGTGT								USP12 (70906 upstream) : RPL21 (8754 downstream)																							gtgtgtgtgcgtgtgtgtgtgtgt	0.113													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	28371329	28371329	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28371329delC								GSX1 (3240 upstream) : PDX1 (122839 downstream)																							CGCAGATCCACAGCTGTGAGC	0.632													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	31417088	31417089	+	IGR	INS	-	GT	GT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:31417088_31417089insGT								ALOX5AP (78532 upstream) : C13orf33 (63223 downstream)																							atgtgtatgtggtgtgtgtgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	32179502	32179503	+	IGR	INS	-	A	A	rs144242629	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32179502_32179503insA								B3GALTL (273093 upstream) : RXFP2 (134176 downstream)																							cacaatTGAACAAAAAATGTAA	0.178													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	35078424	35078424	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:35078424delA								RFC3 (537730 upstream) : NBEA (438032 downstream)																							CAATGGAAGGAAATGACCAAA	0.428													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	36333742	36333742	+	IGR	DEL	G	-	-	rs78848472		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36333742delG								NBEA (86870 upstream) : DCLK1 (9381 downstream)																							ggggcatccagggttccttcc	0.000													4	3	---	---	---	---	
DCLK1	9201	broad.mit.edu	37	13	36484126	36484126	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36484126delA	uc001uvf.2	-							NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1						cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		TCATTTTGCTAAAGACACCCG	0.517													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	37204443	37204443	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:37204443delT								CCNA1 (187425 upstream) : C13orf36 (43606 downstream)																							agaataggggtttgctctctg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	38039984	38039985	+	IGR	INS	-	T	T	rs145987601	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:38039984_38039985insT								CSNK1A1L (360183 upstream) : POSTN (96735 downstream)																							TCGTTTTCCAGTTTTTTTTTCA	0.332													3	3	---	---	---	---	
KIAA0564	23078	broad.mit.edu	37	13	42286078	42286079	+	Intron	INS	-	TT	TT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42286078_42286079insTT	uc001uyj.2	-							NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a							extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		AATGCAAACACTTTTTTTTTTT	0.124													2	4	---	---	---	---	
KIAA0564	23078	broad.mit.edu	37	13	42518971	42518972	+	Intron	INS	-	CAA	CAA	rs143950094	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42518971_42518972insCAA	uc001uyj.2	-						KIAA0564_uc001uyk.2_Intron	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a							extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		tcaaaaaaaatcaacaattgtt	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	46204627	46204627	+	IGR	DEL	T	-	-	rs79045671		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46204627delT								FAM194B (14753 upstream) : SPERT (71819 downstream)																							TGCTGCAGGATTTTTTTTTCT	0.413													4	2	---	---	---	---	
NEK3	4752	broad.mit.edu	37	13	52713049	52713050	+	Intron	DEL	AG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52713049_52713050delAG	uc001vgi.2	-						NEK3_uc001vgg.2_Intron|NEK3_uc001vgh.2_Intron|NEK3_uc010tgx.1_Intron|NEK3_uc010tgy.1_Intron	NM_152720	NP_689933	P51956	NEK3_HUMAN	NIMA-related kinase 3 isoform a						cell division|mitosis	nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.034)|Hepatocellular(98;0.065)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.81e-08)		cctagacaacagagagagagag	0.109													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	57942327	57942329	+	IGR	DEL	AAG	-	-	rs67791651		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:57942327_57942329delAAG								PRR20B (197975 upstream) : PCDH17 (263460 downstream)																							AGGTTACAACAAGAAGAATTGTT	0.335													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	58641367	58641367	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:58641367delT								PCDH17 (338302 upstream) : None (None downstream)																							tttctaagcatttatacaatt	0.015													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	61734723	61734723	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61734723delT								TDRD3 (586711 upstream) : PCDH20 (249098 downstream)																							ATAGCAAAGGTTTTGTCAGAG	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	63617388	63617389	+	IGR	DEL	AA	-	-	rs141473700		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:63617388_63617389delAA								None (None upstream) : OR7E156P (694179 downstream)																							CTTTGCAGTTAAGAGATATTCA	0.282													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	66874027	66874027	+	IGR	DEL	A	-	-	rs115510863	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:66874027delA								None (None upstream) : PCDH9 (2940 downstream)																							agccagggggaaaaaaaaaat	0.114													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	72837054	72837055	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:72837054_72837055delTG								DACH1 (395724 upstream) : C13orf37 (445440 downstream)																							AATGTCTCTATGTGTGTGTGAG	0.317													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	73720134	73720135	+	IGR	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73720134_73720135delGT								KLF5 (68459 upstream) : KLF12 (540015 downstream)																							AAGGTGGTAGGTGTGTGTGTGT	0.351													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	74139945	74139946	+	IGR	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:74139945_74139946insG								KLF5 (488270 upstream) : KLF12 (120204 downstream)																							TTTCCTGATGTGGGGGAAAAGG	0.228													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	76774762	76774762	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:76774762delA								LMO7 (340758 upstream) : KCTD12 (679542 downstream)																							ttcttgctgcaaaacccccat	0.080													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	77278317	77278317	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:77278317delA								LMO7 (844313 upstream) : KCTD12 (175987 downstream)																							GATAATGGGGAAAAATGGATG	0.353													4	2	---	---	---	---	
RBM26	64062	broad.mit.edu	37	13	79933012	79933012	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:79933012delA	uc001vkz.2	-						RBM26_uc001vky.2_Intron|RBM26_uc001vla.2_Intron|RBM26_uc001vkx.2_Intron	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26						mRNA processing		nucleotide binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)		CGCTTTATTTAAAAAAAGAAA	0.269													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	81924291	81924292	+	IGR	INS	-	T	T	rs78774949		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:81924291_81924292insT								None (None upstream) : None (None downstream)																							TGAATGTAAGATTTTTTTTTTG	0.317													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	82968322	82968322	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:82968322delA								None (None upstream) : None (None downstream)																							caagaccatcaatggaccaat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	83104096	83104097	+	IGR	INS	-	T	T	rs149474503	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:83104096_83104097insT								None (None upstream) : None (None downstream)																							atctccagaactttttaaaaag	0.089													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	87399337	87399337	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:87399337delA								None (None upstream) : SLITRK5 (925533 downstream)																							aaagttctgcaaaaaaaatgc	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	88577855	88577855	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88577855delA								SLITRK5 (245987 upstream) : None (None downstream)																							atttctatggaaaaaaaagtc	0.000													4	2	---	---	---	---	
GPC5	2262	broad.mit.edu	37	13	93375223	93375223	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:93375223delA	uc010tif.1	+							NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor							anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				AGATTAAGCCAAAAAATTATG	0.184													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	93738419	93738419	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:93738419delC								GPC5 (218934 upstream) : GPC6 (140659 downstream)																							gcattactgacaatagccaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	100663363	100663363	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100663363delA								ZIC2 (24345 upstream) : PCCA (77974 downstream)																							gggcagaactaaagggaaaag	0.060													4	2	---	---	---	---	
FGF14	2259	broad.mit.edu	37	13	102776718	102776718	+	Intron	DEL	T	-	-	rs60600750		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:102776718delT	uc001vpf.2	-							NM_175929	NP_787125	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1B						cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding			ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ACCACCAAAATAGAGATGATT	0.338													6	3	---	---	---	---	
ERCC5	2073	broad.mit.edu	37	13	103466478	103466479	+	Intron	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:103466478_103466479delTG	uc001vpu.1	+						BIVM_uc001vps.2_Intron|BIVM_uc010agc.2_Intron|BIVM_uc001vpt.2_Intron	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein						negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					gtgttgaggctgtgtgtgtgtg	0.287			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	103965726	103965726	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:103965726delA								SLC10A2 (246530 upstream) : None (None downstream)																							TAATCAAAACAAAAAAAAAAG	0.348													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	107539676	107539676	+	IGR	DEL	A	-	-	rs11365329		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:107539676delA								ARGLU1 (319162 upstream) : FAM155A (281204 downstream)																							CAGAGATGGCAAAGGATACCA	0.448													5	3	---	---	---	---	
MYO16	23026	broad.mit.edu	37	13	109247905	109247905	+	5'Flank	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:109247905delG	uc001vqt.1	+							NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8						cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			TAATACCCCAGGCAGTCGCTC	0.468													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	112273342	112273343	+	IGR	DEL	TG	-	-	rs146305452		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:112273342_112273343delTG								C13orf16 (276749 upstream) : SOX1 (448570 downstream)																							TAGGGGAGGCTGTGTGTGTGCA	0.213													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	112273431	112273432	+	IGR	DEL	GT	-	-	rs71786561		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:112273431_112273432delGT								C13orf16 (276838 upstream) : SOX1 (448481 downstream)																							tgtgtgtctggtgtgtggtgtg	0.114													3	5	---	---	---	---	
TFDP1	7027	broad.mit.edu	37	13	114292432	114292432	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:114292432delT	uc001vtw.2	+						TFDP1_uc010tkd.1_Intron|TFDP1_uc010tke.1_Intron|TFDP1_uc001vty.3_Intron|TFDP1_uc001vtx.2_Intron	NM_007111	NP_009042	Q14186	TFDP1_HUMAN	transcription factor Dp-1						cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|regulation of transcription from RNA polymerase II promoter	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			lung(4)|ovary(2)|skin(1)	7	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.132)|all_epithelial(44;0.0731)|all_lung(25;0.149)|Breast(118;0.153)	all cancers(43;0.0576)			TACATGGTGGTTTTTTTTTCA	0.453										TSP Lung(29;0.18)			3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	19589829	19589829	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:19589829delT								POTEG (4887 upstream) : P704P (394125 downstream)																							caccagctgcttttaatttct	0.000													3	3	---	---	---	---	
FLJ10357	55701	broad.mit.edu	37	14	21541598	21541599	+	Intron	INS	-	AC	AC	rs147531531	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21541598_21541599insAC	uc001vzp.2	+						NDRG2_uc010tll.1_5'Flank|FLJ10357_uc001vzn.1_Intron|FLJ10357_uc001vzo.1_Intron|FLJ10357_uc010aij.2_Intron|FLJ10357_uc010tln.1_Intron	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701						regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		TTCAGATGCTAacacacacaca	0.411													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	23115301	23115301	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23115301delT								ABHD4 (34044 upstream) : OXA1L (120430 downstream)																							CCAGTCTCCCTTGAATTACCG	0.507													4	2	---	---	---	---	
SLC7A7	9056	broad.mit.edu	37	14	23247786	23247787	+	Intron	INS	-	A	A	rs143089787	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23247786_23247787insA	uc001wgr.3	-						SLC7A7_uc001wgs.3_Intron|SLC7A7_uc001wgt.3_Intron|SLC7A7_uc001wgu.3_Intron|SLC7A7_uc001wgv.3_Intron	NM_003982	NP_003973	Q9UM01	YLAT1_HUMAN	solute carrier family 7 member 7						blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity			ovary(1)|breast(1)	2	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.00741)		AAAATGCCTTTAAAAATTTACA	0.149													6	3	---	---	---	---	
C14orf21	161424	broad.mit.edu	37	14	24770456	24770456	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24770456delA	uc001wol.1	+						C14orf21_uc001wom.1_5'Flank|DHRS1_uc001woj.1_5'Flank|DHRS1_uc001wok.2_5'Flank	NM_174913	NP_777573	Q86U38	CN021_HUMAN	hypothetical protein LOC161424								RNA binding			breast(2)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(265;0.0185)		tatttcatttaaaaaaaatgc	0.035													4	2	---	---	---	---	
NFATC4	4776	broad.mit.edu	37	14	24834638	24834639	+	5'Flank	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24834638_24834639insA	uc001wpc.2	+						NFATC4_uc010tok.1_5'Flank|NFATC4_uc010tol.1_5'Flank|NFATC4_uc010alr.2_5'Flank|NFATC4_uc010als.2_5'Flank|NFATC4_uc010tom.1_5'Flank|NFATC4_uc010ton.1_5'Flank|NFATC4_uc010too.1_5'Flank|NFATC4_uc010alt.2_5'Flank|NFATC4_uc010top.1_5'Flank|NFATC4_uc010toq.1_5'Flank|NFATC4_uc010alu.2_5'Flank|NFATC4_uc010tor.1_5'Flank	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,						cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		GTTAAGTGAGGAAAAAAAAAAG	0.337													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	29419478	29419479	+	IGR	INS	-	TTT	TTT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:29419478_29419479insTTT								C14orf23 (155479 upstream) : PRKD1 (626210 downstream)																							gtaccatgttgttttggttaca	0.000													4	2	---	---	---	---	
AKAP6	9472	broad.mit.edu	37	14	33191429	33191430	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33191429_33191430insT	uc001wrq.2	+						AKAP6_uc010aml.2_Intron	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6						protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		tactgaagtgcttttttttgga	0.000													4	2	---	---	---	---	
NPAS3	64067	broad.mit.edu	37	14	33822037	33822037	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33822037delC	uc001wru.2	+						NPAS3_uc001wrs.2_Intron|NPAS3_uc001wrt.2_Intron|NPAS3_uc001wrv.2_Intron|NPAS3_uc001wrw.2_Intron	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		AAGCTTACTTCATCTCAATTT	0.284													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	34970308	34970309	+	IGR	INS	-	A	A	rs138989664	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:34970308_34970309insA								C14orf147 (38840 upstream) : EAPP (14826 downstream)																							ttttcaatagtaaaaaaaaaag	0.000													4	2	---	---	---	---	
BRMS1L	84312	broad.mit.edu	37	14	36325699	36325699	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:36325699delT	uc001wtl.2	+						BRMS1L_uc010tpx.1_Intron	NM_032352	NP_115728	Q5PSV4	BRM1L_HUMAN	breast cancer metastasis-suppressor 1-like						regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				skin(1)	1	Breast(36;0.137)|Hepatocellular(127;0.158)		Lung(8;1.7e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.00467)|all cancers(34;0.0157)|BRCA - Breast invasive adenocarcinoma(188;0.158)	GBM - Glioblastoma multiforme(112;0.0333)		ATTCACTTAAtttttttctga	0.189													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	38638209	38638210	+	IGR	INS	-	G	G	rs150871929	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38638209_38638210insG								FOXA1 (573720 upstream) : SSTR1 (38994 downstream)																							TGAGATCTGCTGGGGGGCGAAC	0.272													2	7	---	---	---	---	
C14orf138	79609	broad.mit.edu	37	14	50583765	50583766	+	5'Flank	INS	-	TG	TG	rs141099390	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50583765_50583766insTG	uc001wxo.1	-						C14orf138_uc001wxn.1_5'Flank|C14orf138_uc001wxp.1_5'Flank|C14orf138_uc001wxq.1_5'Flank	NM_024558	NP_078834	Q9H867	MT21D_HUMAN	hypothetical protein LOC79609 isoform a								methyltransferase activity				0	all_epithelial(31;0.000822)|Breast(41;0.0065)					GAAGAAAAAATtgtgtgtgtgt	0.292													4	3	---	---	---	---	
SAMD4A	23034	broad.mit.edu	37	14	55046430	55046430	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55046430delA	uc001xbb.2	+						SAMD4A_uc001xba.2_Intron|SAMD4A_uc001xbc.2_Intron	NM_015589	NP_056404	Q9UPU9	SMAG1_HUMAN	sterile alpha motif domain containing 4 isoform						positive regulation of translation	cell junction|cytoplasm|dendrite|synapse|synaptosome	translation repressor activity				0						TCCTTTAAGGAAGACTCATGG	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	55940058	55940058	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55940058delT								TBPL2 (32795 upstream) : C14orf33 (84632 downstream)																							gaaaattttattttttttaag	0.000													4	2	---	---	---	---	
DAAM1	23002	broad.mit.edu	37	14	59787490	59787490	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:59787490delA	uc001xdz.1	+						DAAM1_uc001xea.1_Intron|DAAM1_uc001xeb.1_Intron	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of						actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		taggatggctaaaaaaaaaca	0.090													9	4	---	---	---	---	
SLC38A6	145389	broad.mit.edu	37	14	61495532	61495532	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:61495532delA	uc001xfg.1	+						SLC38A6_uc001xfh.1_Intron|SLC38A6_uc001xfi.2_Intron|SLC38A6_uc001xfj.1_Intron|SLC38A6_uc001xfk.2_Intron|SLC38A6_uc010trz.1_Intron	NM_153811	NP_722518	Q8IZM9	S38A6_HUMAN	solute carrier family 38, member 6						amino acid transport|sodium ion transport	integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0981)		TTATTTTACTAAAAAAAATTG	0.244													4	2	---	---	---	---	
SYNE2	23224	broad.mit.edu	37	14	64641509	64641510	+	Intron	DEL	TG	-	-	rs116959261	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64641509_64641510delTG	uc001xgm.2	+						SYNE2_uc001xgl.2_Intron|SYNE2_uc010apy.2_Intron|SYNE2_uc001xgn.2_Intron|SYNE2_uc001xgo.2_Intron|SYNE2_uc010aqa.2_Intron|SYNE2_uc001xgq.2_Intron	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2						centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TAGCTTTTGATGTGTGTGTGTA	0.332													4	2	---	---	---	---	
FUT8	2530	broad.mit.edu	37	14	66126537	66126537	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66126537delT	uc001xin.2	+						FUT8_uc001xio.2_Intron|FUT8_uc010tsp.1_Intron|FUT8_uc001xir.3_Intron|FUT8_uc001xip.2_Intron|FUT8_uc001xiq.2_Intron	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a						in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)		ACCTGTCATATTTTTGAGGAA	0.199													4	2	---	---	---	---	
GPHN	10243	broad.mit.edu	37	14	67429054	67429055	+	Intron	INS	-	T	T	rs76873799		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:67429054_67429055insT	uc001xiy.2	+						GPHN_uc001xiw.2_Intron|GPHN_uc001xix.2_Intron|GPHN_uc010tss.1_Intron|GPHN_uc010tst.1_Intron|GPHN_uc010tsu.1_Intron	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2						Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		ggcAGTTTTTGTTTTTTTTTTT	0.158			T	MLL	AL								6	3	---	---	---	---	
AHSA1	10598	broad.mit.edu	37	14	77935089	77935090	+	Intron	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77935089_77935090delAC	uc001xtw.2	+							NM_012111	NP_036243	O95433	AHSA1_HUMAN	activator of heat shock 90kDa protein ATPase						protein folding|response to stress	cytosol|endoplasmic reticulum	ATPase activator activity|chaperone binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		ttttttttttacttttttactt	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	78114011	78114012	+	IGR	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:78114011_78114012insG								SPTLC2 (30901 upstream) : ALKBH1 (24737 downstream)																							tcatatcaaaaaaaaaaaagaa	0.064													4	2	---	---	---	---	
NRXN3	9369	broad.mit.edu	37	14	79219621	79219621	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:79219621delA	uc001xun.2	+						NRXN3_uc001xum.1_Intron|NRXN3_uc010asv.1_Intron|uc001xuo.1_Intron	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor						axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		agcaaaacagaaaaaaaaaat	0.214													3	4	---	---	---	---	
NRXN3	9369	broad.mit.edu	37	14	79709768	79709768	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:79709768delT	uc001xun.2	+						NRXN3_uc001xum.1_Intron	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor						axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		aaaaggaATCTTttttttgag	0.005													4	2	---	---	---	---	
STON2	85439	broad.mit.edu	37	14	81816827	81816827	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81816827delA	uc010tvu.1	-						STON2_uc001xvk.1_Intron	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2						endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		TCAGAAGAAGAAAAAAAAAAA	0.378													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	88223986	88223987	+	IGR	INS	-	A	A	rs5810384		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:88223986_88223987insA								None (None upstream) : GALC (80177 downstream)																							GTAATTGTTTTAAAAaaaaaaa	0.104													4	2	---	---	---	---	
FOXN3	1112	broad.mit.edu	37	14	89699833	89699834	+	Intron	INS	-	AACT	AACT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89699833_89699834insAACT	uc001xxo.3	-						FOXN3_uc001xxn.3_Intron|FOXN3_uc010atk.2_Intron	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1						DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(2)|ovary(1)	3						ACACATAGTAAAACTAAGTATC	0.327													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	95383524	95383525	+	IGR	DEL	AG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95383524_95383525delAG								GSC (147025 upstream) : DICER1 (169040 downstream)																							gtaaaggaacagagagagagag	0.000													4	2	---	---	---	---	
ATG2B	55102	broad.mit.edu	37	14	96799859	96799859	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96799859delA	uc001yfi.2	-							NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B											ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		GCATTACTGTAATGTTGTGAT	0.294													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	97348018	97348018	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:97348018delT								VRK1 (68 upstream) : None (None downstream)																							ATTAAACACCTGCTGTATGAG	0.343													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	97476250	97476251	+	IGR	DEL	GA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:97476250_97476251delGA								VRK1 (128300 upstream) : C14orf64 (915696 downstream)																							AGTCGCTTCTGAACCAGTACCC	0.500													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	98504682	98504683	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:98504682_98504683insT								C14orf64 (60221 upstream) : C14orf177 (673267 downstream)																							gtgtttctctattttttttcaa	0.050													4	2	---	---	---	---	
EML1	2009	broad.mit.edu	37	14	100304967	100304967	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100304967delT	uc001ygs.2	+						EML1_uc010avt.1_Intron|EML1_uc010tww.1_Intron|EML1_uc001ygq.2_Intron|EML1_uc001ygr.2_Intron	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1							cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				AAAGCTGTAGTTTTTTTTTTT	0.468													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	101534425	101534428	+	5'Flank	DEL	TCTC	-	-	rs71856743		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101534425_101534428delTCTC	uc001yjz.1	+											Homo sapiens cDNA FLJ11465 fis, clone HEMBA1001636.																		GGCAGAAATTtctctctctctctc	0.221													4	2	---	---	---	---	
ADAM6	8755	broad.mit.edu	37	14	106892609	106892609	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106892609delG	uc010tyt.1	-						uc010tyu.1_Intron					Parts of antibodies, mostly variable regions.												0						CTGAGAATCTGGAAGATTTTG	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20264798	20264799	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20264798_20264799insA								None (None upstream) : GOLGA6L6 (472295 downstream)																							gcactacattgaaacatgggat	0.000													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20443310	20443310	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20443310delT								None (None upstream) : GOLGA6L6 (293784 downstream)																							AATTTTAGGGtttttttgcag	0.249													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20484321	20484323	+	IGR	DEL	AAG	-	-	rs144074107		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20484321_20484323delAAG								None (None upstream) : GOLGA6L6 (252771 downstream)																							tttgaaaaataagaacagagttg	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20582396	20582396	+	IGR	DEL	A	-	-	rs113820820		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20582396delA								None (None upstream) : GOLGA6L6 (154698 downstream)																							TGATCTCATGAAAAAaaaaat	0.294													4	2	---	---	---	---	
HERC2P2	400322	broad.mit.edu	37	15	23308193	23308193	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23308193delT	uc001yvq.2	-						HERC2P2_uc001yvo.3_Intron|HERC2P2_uc001yvp.3_Intron					Homo sapiens mRNA for KIAA0393 protein, partial cds.												0						TTTACGCGCATTTGAAgaacc	0.254													4	2	---	---	---	---	
PWRN2	791115	broad.mit.edu	37	15	24412660	24412661	+	RNA	INS	-	G	G	rs143055387	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24412660_24412661insG	uc010uad.1	-	1		c.2393_2394insC			PWRN2_uc001ywl.2_RNA	NR_026647				Homo sapiens Prader-Willi region non-protein coding RNA 2 (PWRN2), non-coding RNA.												0						taaagtgttaaaactgaatagt	0.010													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	30349784	30349784	+	IGR	DEL	A	-	-	rs111638939		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:30349784delA								TJP1 (235078 upstream) : FAM7A3 (46151 downstream)																							aaaacaaaacaaaaaacatgc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	33428732	33428732	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33428732delT								FMN1 (68647 upstream) : RYR3 (174445 downstream)																							AAGCAAGTGGTTTTTTTTGAT	0.373													4	2	---	---	---	---	
RYR3	6263	broad.mit.edu	37	15	34138392	34138393	+	Intron	INS	-	T	T	rs143107612	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34138392_34138393insT	uc001zhi.2	+						RYR3_uc010bar.2_Intron	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3						cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		gatggcttgggtttccaaaaag	0.000													4	2	---	---	---	---	
MEIS2	4212	broad.mit.edu	37	15	37329740	37329741	+	Intron	INS	-	A	A	rs140588396		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:37329740_37329741insA	uc001zjr.2	-						MEIS2_uc001zjl.2_Intron|MEIS2_uc010ucj.1_Intron|MEIS2_uc001zjm.2_Intron|MEIS2_uc001zjn.2_Intron|MEIS2_uc001zjo.2_Intron|MEIS2_uc001zjp.2_Intron|MEIS2_uc001zjs.2_Intron|MEIS2_uc001zju.2_Intron|MEIS2_uc001zjt.2_Intron	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c						negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		TCATTATCATGAAAAAAAAAAA	0.396													5	3	---	---	---	---	
INO80	54617	broad.mit.edu	37	15	41389234	41389241	+	Intron	DEL	ACACAATC	-	-	rs11277934		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41389234_41389241delACACAATC	uc001zni.2	-						INO80_uc010ucu.1_Intron	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1						cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						TTCACTAGAGacacaatcacacaatcac	0.250													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	46978835	46978835	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:46978835delT								SQRDL (995357 upstream) : SEMA6D (497568 downstream)																							AAGAAAGGCCTTTTTTTTTCC	0.328													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	48357689	48357689	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48357689delC								SEMA6D (291270 upstream) : SLC24A5 (55480 downstream)																							GATATCCACTCCCCCCAAAAA	0.463													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	50011497	50011497	+	IGR	DEL	T	-	-	rs67518496		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:50011497delT								DTWD1 (74165 upstream) : ATP8B4 (138939 downstream)																							ttcttttttcttttttttttg	0.179													4	2	---	---	---	---	
AP4E1	23431	broad.mit.edu	37	15	51230261	51230261	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51230261delA	uc001zyx.1	+						AP4E1_uc010ufi.1_Intron|AP4E1_uc010ufj.1_Intron|AP4E1_uc010ufk.1_Intron	NM_007347	NP_031373	Q9UPM8	AP4E1_HUMAN	adaptor-related protein complex 4, epsilon 1						intracellular protein transport|vesicle-mediated transport	COPI vesicle coat	binding|structural molecule activity				0				all cancers(107;0.000893)|GBM - Glioblastoma multiforme(94;0.00364)		aatttcacctaaaacccttgg	0.075													4	2	---	---	---	---	
CYP19A1	1588	broad.mit.edu	37	15	51575258	51575258	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51575258delT	uc001zyz.3	-						CYP19A1_uc001zza.3_Intron|CYP19A1_uc001zzb.2_Intron|CYP19A1_uc010bey.1_Intron|CYP19A1_uc001zze.1_Intron	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19						estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	aaaattccagttttttttggt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	56780097	56780098	+	IGR	INS	-	T	T	rs114857467	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:56780097_56780098insT								MNS1 (22762 upstream) : ZNF280D (142278 downstream)																							ttacagaaggattttttttaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	57615031	57615032	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:57615031_57615032delTG								LOC283663 (15066 upstream) : CGNL1 (53673 downstream)																							CGGTGTGTCTTGATCAGAGGAG	0.351													4	2	---	---	---	---	
NARG2	79664	broad.mit.edu	37	15	60747823	60747823	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60747823delT	uc002agp.2	-						NARG2_uc002ago.2_Intron|NARG2_uc002agq.3_5'Flank|NARG2_uc010bgk.2_Intron|NARG2_uc002agr.1_Intron	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a							nucleus				ovary(1)|lung(1)	2						TACCTGTGGGttttttttttt	0.149													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	61891239	61891239	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:61891239delG	uc002agy.1	+											Homo sapiens cDNA clone IMAGE:5287572.																		TGTACAGACAGGTCTTTATTC	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	67097709	67097709	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:67097709delC								SMAD6 (23374 upstream) : SMAD3 (260486 downstream)																							TCCACTGCAACCCAACTCAAG	0.453													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	67178371	67178372	+	IGR	DEL	TT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:67178371_67178372delTT								SMAD6 (104036 upstream) : SMAD3 (179823 downstream)																							AAGAACTTCATTTTTTTTTTTG	0.416													4	2	---	---	---	---	
TLE3	7090	broad.mit.edu	37	15	70386691	70386691	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70386691delA	uc002asm.2	-						TLE3_uc002ask.2_Intron|TLE3_uc002asl.2_Intron|TLE3_uc010ukd.1_Intron|TLE3_uc010bik.1_Intron|TLE3_uc010bil.1_Intron|TLE3_uc002asn.2_Intron|TLE3_uc002asp.2_Intron|TLE3_uc002aso.2_Intron	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a						organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						CAACATGTCTAAAAAAAAATC	0.443													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	73710302	73710302	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73710302delT								HCN4 (48697 upstream) : C15orf60 (25197 downstream)																							atttatacagttggttctcca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	75610216	75610217	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75610216_75610217insT								GOLGA6D (22070 upstream) : COMMD4 (18157 downstream)																							tatgcctgttgtttttttgttt	0.000													4	2	---	---	---	---	
C15orf27	123591	broad.mit.edu	37	15	76481704	76481707	+	Intron	DEL	AGGA	-	-	rs57673397	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76481704_76481707delAGGA	uc002bbq.2	+						C15orf27_uc010bkp.2_Intron|C15orf27_uc002bbr.2_Intron|C15orf27_uc002bbs.2_5'Flank	NM_152335	NP_689548	Q2M3C6	CO027_HUMAN	hypothetical protein LOC123591							integral to membrane					0						ggagggagggaggaaggaaggaag	0.245													4	2	---	---	---	---	
SCAPER	49855	broad.mit.edu	37	15	76858588	76858588	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76858588delT	uc002bby.2	-						SCAPER_uc010bkr.2_Intron|SCAPER_uc002bbx.2_Intron|SCAPER_uc002bbz.1_Intron	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER							endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						GTGAATGGAATTTTACAAGAT	0.343													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	78065030	78065030	+	IGR	DEL	T	-	-	rs146593292		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78065030delT								LINGO1 (76555 upstream) : LOC645752 (141529 downstream)																							AAAAGGTCCATTAACACATTT	0.393													4	2	---	---	---	---	
TBC1D2B	23102	broad.mit.edu	37	15	78327357	78327358	+	Intron	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78327357_78327358insG	uc002bcy.3	-						TBC1D2B_uc010bla.2_Intron	NM_144572	NP_653173	Q9UPU7	TBD2B_HUMAN	TBC1 domain family, member 2B isoform a							intracellular	protein binding|Rab GTPase activator activity			ovary(1)|large_intestine(1)|breast(1)	3						TGTTAGAGGCTGTTCTATGACA	0.505													4	2	---	---	---	---	
C15orf40	123207	broad.mit.edu	37	15	83673932	83673933	+	Intron	INS	-	AT	AT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83673932_83673933insAT	uc010uoo.1	-						C15orf40_uc010uon.1_Intron|C15orf40_uc002bjm.2_3'UTR|C15orf40_uc010uop.1_Intron|C15orf40_uc010uoq.1_Intron	NM_001160115	NP_001153587	Q8WUR7	CO040_HUMAN	hypothetical protein LOC123207 isoform d											skin(1)	1						CGAATATATACATATATATATG	0.322													4	2	---	---	---	---	
PDE8A	5151	broad.mit.edu	37	15	85581448	85581449	+	Intron	DEL	GT	-	-	rs58068022		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85581448_85581449delGT	uc002blh.2	+						PDE8A_uc002bli.2_Intron|PDE8A_uc010bnc.2_Intron|PDE8A_uc010bnd.2_Intron|PDE8A_uc002blj.2_Intron	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1						cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			CAATTGGGGGgtgtgtgtgtgt	0.198													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	88271340	88271340	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88271340delT								NCRNA00052 (148423 upstream) : NTRK3 (148648 downstream)																							AAGTTTACCCTTTTCACATAT	0.204													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	88920160	88920160	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88920160delT								NTRK3 (120499 upstream) : MRPL46 (82548 downstream)																							CCCAAAGGGCTTTTTTTTTTC	0.448													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	89152783	89152784	+	5'Flank	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89152783_89152784insG	uc010upm.1	+						MIR7-2_hsa-mir-7-2|MI0000264_5'Flank					DL233857																		ATCATTGTCATGGAGGAAACCA	0.460													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	92069368	92069368	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:92069368delT								SV2B (230720 upstream) : SLCO3A1 (327570 downstream)																							GGACTATCTCTAGACTGGAGG	0.473													4	2	---	---	---	---	
FAM174B	400451	broad.mit.edu	37	15	93277457	93277458	+	5'Flank	DEL	CC	-	-	rs12442756	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93277457_93277458delCC	uc002bsl.3	-									Q3ZCQ3	F174B_HUMAN	Homo sapiens cDNA PSEC0264 fis, clone NT2RP3002337.							integral to membrane					0						tccgcctccgccccgccgcgcg	0.233													5	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	94699924	94699924	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:94699924delG								None (None upstream) : MCTP2 (74877 downstream)																							GGATTTCTCTGGGGTTCTTTG	0.443													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	95115572	95115572	+	IGR	DEL	A	-	-	rs34204251		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:95115572delA								MCTP2 (88392 upstream) : LOC145820 (860750 downstream)																							TGCTCTCCAGACAGCAGACAG	0.537													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	95611925	95611925	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:95611925delT								MCTP2 (584745 upstream) : LOC145820 (364397 downstream)																							GGTCAGAAAATTTTTTTTGTT	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	95639042	95639042	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:95639042delA								MCTP2 (611862 upstream) : LOC145820 (337280 downstream)																							AGAGGAAGAGAAGGAGCAAGG	0.348													4	2	---	---	---	---	
FAM169B	283777	broad.mit.edu	37	15	99037350	99037350	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99037350delA	uc002buk.1	-							NM_182562	NP_872368	Q8N8A8	F169B_HUMAN	hypothetical protein LOC283777												0						CAGGTGAGGGAGGTGACAGAG	0.552													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	100006265	100006265	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100006265delA								LRRC28 (78985 upstream) : MEF2A (99868 downstream)																							aggtgcagggaatgggtagcg	0.010													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	868889	868891	+	IGR	DEL	TGA	-	-	rs66588103		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:868889_868891delTGA								PRR25 (5029 upstream) : LMF1 (34744 downstream)																							gtagtgatggtgatgatgatggt	0.089													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	868929	868929	+	IGR	DEL	A	-	-	rs78151540		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:868929delA								PRR25 (5069 upstream) : LMF1 (34706 downstream)																							tgatgatggtagtaaagactg	0.194													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	868931	868932	+	IGR	DEL	TA	-	-	rs78062829		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:868931_868932delTA								PRR25 (5071 upstream) : LMF1 (34703 downstream)																							atgatggtagtaaagactgtag	0.203													3	3	---	---	---	---	
LOC146336	146336	broad.mit.edu	37	16	1117794	1117799	+	Intron	DEL	TTGCGA	-	-	rs62012277	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1117794_1117799delTTGCGA	uc002cko.2	-							NR_027242				SubName: Full=cDNA FLJ32252 fis, clone PROST1000167, weakly similar to SYNAPSIN I;												0						TTTGTTGTGGTTGCGATTTTTGCGGT	0.218													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	1310784	1310785	+	IGR	DEL	CA	-	-	rs71865781		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1310784_1310785delCA								TPSD1 (2290 upstream) : UBE2I (48395 downstream)																							GACGCACGTCCACACAGAGCCC	0.658													1	8	---	---	---	---	
ABCA3	21	broad.mit.edu	37	16	2365575	2365576	+	Intron	INS	-	T	T	rs143998575	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2365575_2365576insT	uc002cpy.1	-						ABCA3_uc010bsk.1_Intron|ABCA3_uc010bsl.1_Intron	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3						response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				acagagaagagtgactctaaaa	0.168													1	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	5408259	5408259	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:5408259delT	uc002cyq.1	+											Homo sapiens cDNA clone IMAGE:5244947, **** WARNING: chimeric clone ****.																		aagcttcccctttttataagg	0.000													4	2	---	---	---	---	
A2BP1	54715	broad.mit.edu	37	16	6284817	6284818	+	Intron	INS	-	AC	AC	rs141626264	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:6284817_6284818insAC	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		actacacacagacacacacaca	0.000													5	3	---	---	---	---	
A2BP1	54715	broad.mit.edu	37	16	7494543	7494543	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7494543delT	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Intron|A2BP1_uc010uyb.1_Intron|A2BP1_uc002cyw.2_Intron|A2BP1_uc002cyy.2_Intron|A2BP1_uc002cyx.2_Intron|A2BP1_uc010uyc.1_Intron	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		TTGGGTAGCCtttttttttga	0.219													4	2	---	---	---	---	
A2BP1	54715	broad.mit.edu	37	16	7684004	7684005	+	Intron	DEL	CA	-	-	rs114877391	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7684004_7684005delCA	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Intron|A2BP1_uc010uyb.1_Intron|A2BP1_uc002cyw.2_Intron|A2BP1_uc002cyy.2_Intron|A2BP1_uc002cyx.2_Intron|A2BP1_uc010uyc.1_Intron	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		GGCCTGTGCGCACACACACACA	0.431													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	9598666	9598667	+	IGR	INS	-	T	T	rs150251199		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9598666_9598667insT								C16orf72 (385121 upstream) : GRIN2A (248600 downstream)																							AAATAGtttccttttttttttt	0.213													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	9835737	9835738	+	IGR	DEL	TC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9835737_9835738delTC								C16orf72 (622192 upstream) : GRIN2A (11529 downstream)																							attgtagttttctctctctctc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	10475032	10475033	+	IGR	INS	-	T	T	rs141785081	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10475032_10475033insT								GRIN2A (198421 upstream) : ATF7IP2 (4879 downstream)																							ctttcatcttctttttttttgg	0.010													3	3	---	---	---	---	
EMP2	2013	broad.mit.edu	37	16	10626598	10626598	+	3'UTR	DEL	T	-	-	rs67718108		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10626598delT	uc002czx.2	-	5						NM_001424	NP_001415	P54851	EMP2_HUMAN	epithelial membrane protein 2						cell proliferation	integral to membrane					0						CTCTTTTGGAttttttttttc	0.279													4	3	---	---	---	---	
PDXDC1	23042	broad.mit.edu	37	16	15117519	15117519	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15117519delA	uc002dda.3	+						PDXDC1_uc010uzl.1_Intron|PDXDC1_uc010uzm.1_Intron|PDXDC1_uc002dcz.2_Intron|PDXDC1_uc002ddb.3_Intron|PDXDC1_uc010uzn.1_Intron|PDXDC1_uc002ddc.2_Intron	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain						carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	ctcaaggaagaaaaaaaaaTG	0.254													4	2	---	---	---	---	
C16orf45	89927	broad.mit.edu	37	16	15622426	15622427	+	Intron	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15622426_15622427delAC	uc002ddo.2	+						C16orf45_uc002ddp.2_Intron	NM_033201	NP_149978	Q96MC5	CP045_HUMAN	hypothetical protein LOC89927 isoform 1											ovary(1)	1						tccctcccttacacacacacac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	19994177	19994177	+	IGR	DEL	T	-	-	rs78722738		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19994177delT								GPRC5B (97345 upstream) : GPR139 (48866 downstream)																							aagacattcctttttttctgg	0.000													3	3	---	---	---	---	
GP2	2813	broad.mit.edu	37	16	20329959	20329959	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20329959delC	uc002dgv.2	-						GP2_uc002dgw.2_Intron|GP2_uc002dgx.2_Intron|GP2_uc002dgy.2_Intron	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform							anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						CACCGATCCTCCCTGCAGGAC	0.453													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	22691450	22691450	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:22691450delA								LOC653786 (103264 upstream) : HS3ST2 (134410 downstream)																							TTTATAGGAGAAAGAAGATGT	0.483													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	25435615	25435615	+	IGR	DEL	T	-	-	rs35563649		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:25435615delT								ZKSCAN2 (166760 upstream) : HS3ST4 (267732 downstream)																							AAGTGTACAATTAGCAATTAA	0.483													2	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	26365906	26365906	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26365906delA								HS3ST4 (216898 upstream) : C16orf82 (712313 downstream)																							aacttcatctaaaaaaaataa	0.129													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	26525053	26525053	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26525053delA								HS3ST4 (376045 upstream) : C16orf82 (553166 downstream)																							aaacaaagctaaaatggttac	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	26989314	26989314	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26989314delC								HS3ST4 (840306 upstream) : C16orf82 (88905 downstream)																							gctaaaccttccctcccagtc	0.000													4	2	---	---	---	---	
BOLA2	552900	broad.mit.edu	37	16	29775210	29775211	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:29775210_29775211insA	uc010bzb.1	-						uc002dtf.2_Intron			Q9H3K6	BOLA2_HUMAN	SubName: Full=Putative uncharacterized protein ENSP00000369970; Flags: Fragment;												0						tccctctctctaaaaaaaaaag	0.233													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32108828	32108828	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32108828delC								ZNF267 (180202 upstream) : HERC2P4 (53782 downstream)																							ACTTCATACTCCCGTTTGATA	0.398													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32534578	32534578	+	IGR	DEL	A	-	-	rs112534567		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32534578delA								HERC2P4 (370704 upstream) : TP53TG3B (150263 downstream)																							ctggtgaatcaaaaaaaagta	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32555723	32555723	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32555723delA								HERC2P4 (391849 upstream) : TP53TG3B (129118 downstream)																							gtaaaaaaggaaatgtcccca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32858569	32858569	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32858569delA								TP53TG3B (169691 upstream) : SLC6A10P (30228 downstream)																							TCTATCATTTAAAAAAATCAT	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33359722	33359722	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33359722delA								SLC6A10P (463259 upstream) : MIR1826 (605786 downstream)																							actctgtctcaaaaaaataaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33915806	33915806	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33915806delA								None (None upstream) : MIR1826 (49702 downstream)																							atcttcacataaaaaatggac	0.000													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33950580	33950580	+	IGR	DEL	T	-	-	rs113305341		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33950580delT								None (None upstream) : MIR1826 (14928 downstream)																							TAATTTACCCTTTTCACAGTA	0.303													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	34585204	34585204	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:34585204delT								UBE2MP1 (180442 upstream) : LOC283914 (12583 downstream)																							ttgctggatcttatacatggt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	34947243	34947244	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:34947243_34947244insA								LOC146481 (232276 upstream) : None (None downstream)																							tttcttccattaaaatgcctgg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	35101921	35101921	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:35101921delA								LOC146481 (386954 upstream) : None (None downstream)																							ttacactgagaaaaaaaaaag	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	35269613	35269614	+	IGR	INS	-	T	T	rs139766092		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:35269613_35269614insT								LOC146481 (554646 upstream) : None (None downstream)																							ttgaaacactcttttgtagaat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	48828528	48828529	+	IGR	INS	-	T	T	rs141782825	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48828528_48828529insT								N4BP1 (184408 upstream) : CBLN1 (483682 downstream)																							CTTCATTGGGATtttttttttg	0.233													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	52611954	52611954	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:52611954delA	uc002egx.2	-											Homo sapiens cDNA clone IMAGE:5172237.																		TGCCCCCTCCAAAAAAAATGC	0.443													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	54390854	54390855	+	IGR	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:54390854_54390855insG								IRX3 (70476 upstream) : IRX5 (574256 downstream)																							AGAGGTTCAAAGAGTTGGAAGC	0.332													6	3	---	---	---	---	
NDRG4	65009	broad.mit.edu	37	16	58517272	58517272	+	Intron	DEL	A	-	-	rs35447648		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58517272delA	uc002enm.2	+						NDRG4_uc002enk.2_Intron|NDRG4_uc010vif.1_Intron	NM_001130487	NP_001123959	Q9ULP0	NDRG4_HUMAN	NDRG family member 4 isoform 2						cell differentiation|cell growth|multicellular organismal development|response to stress	cytoplasm				skin(1)	1						GTTTGCCTTTAAAAAAAAAAG	0.458													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	60650005	60650006	+	IGR	INS	-	T	T	rs145141218	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:60650005_60650006insT								None (None upstream) : None (None downstream)																							AAATAGTTTGATTTTTTTTTTA	0.302													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	65315328	65315329	+	IGR	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65315328_65315329insG								CDH11 (159409 upstream) : LOC283867 (3073 downstream)																							TCCCCAGCCGTGGGGGTTGAAG	0.475													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	65317094	65317094	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65317094delA								CDH11 (161175 upstream) : LOC283867 (1308 downstream)																							TTTCCTGGTTAAAAAAATAAG	0.294													4	2	---	---	---	---	
LOC283867	283867	broad.mit.edu	37	16	65492435	65492436	+	Intron	INS	-	GT	GT	rs12102577	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65492435_65492436insGT	uc010cdp.1	-						LOC283867_uc002eol.1_Intron					Homo sapiens cDNA clone IMAGE:5276218.												0				OV - Ovarian serous cystadenocarcinoma(108;0.17)		AAGGACAAGACgtgtgtgtgtg	0.272													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	65650286	65650287	+	IGR	INS	-	AGG	AGG			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65650286_65650287insAGG								LOC283867 (40083 upstream) : CDH5 (750238 downstream)																							GCCACATAGGAAGGAAAACAGC	0.465													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	65749137	65749137	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65749137delA								LOC283867 (138934 upstream) : CDH5 (651388 downstream)																							TTTTCAAGACAAACAGACAGA	0.299													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	66144709	66144711	+	IGR	DEL	AGG	-	-	rs144002100		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66144709_66144711delAGG								LOC283867 (534506 upstream) : CDH5 (255814 downstream)																							acccttgataaggagatcagtgt	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	67548407	67548407	+	IGR	DEL	A	-	-	rs72081557		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67548407delA								AGRP (30691 upstream) : FAM65A (14347 downstream)																							acgctgactcaaaaaaaaaaT	0.204													15	11	---	---	---	---	
PHLPP2	23035	broad.mit.edu	37	16	71755095	71755095	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71755095delA	uc002fay.1	-							NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein							cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						acaaacaaacaaaaaaaaaaa	0.000													4	2	---	---	---	---	
PMFBP1	83449	broad.mit.edu	37	16	72164874	72164874	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72164874delA	uc002fcc.3	-						PMFBP1_uc002fcd.2_Intron|PMFBP1_uc002fce.2_Intron|PMFBP1_uc002fcf.2_Intron|PMFBP1_uc010cgo.1_5'Flank	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1											ovary(2)	2		Ovarian(137;0.179)				TGTGCGACTCATTCTGTCACT	0.453													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	72399808	72399809	+	IGR	INS	-	TT	TT			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72399808_72399809insTT								PMFBP1 (193459 upstream) : ZFHX3 (416979 downstream)																							TGCTTTGGGACTTTTTTTTTTA	0.391													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	74200852	74200852	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74200852delA								None (None upstream) : PSMD7 (129829 downstream)																							CTTAAAAAGGAAAAAAAAAAG	0.338													3	3	---	---	---	---	
WWOX	51741	broad.mit.edu	37	16	79206758	79206758	+	Intron	DEL	A	-	-	rs67426071		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:79206758delA	uc002ffk.2	+						WWOX_uc010vnk.1_Intron|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron	NM_016373	NP_057457	Q9NZC7	WWOX_HUMAN	WW domain-containing oxidoreductase isoform 1						apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)		ctgcaaaaagaaaaaaaaaaa	0.000													3	3	---	---	---	---	
MAF	4094	broad.mit.edu	37	16	79632478	79632479	+	3'UTR	INS	-	GTGT	GTGT	rs150301079	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:79632478_79632479insGTGT	uc002ffn.2	-	1					MAF_uc002ffm.2_Intron	NM_001031804	NP_001026974	O75444	MAF_HUMAN	v-maf musculoaponeurotic fibrosarcoma oncogene						transcription from RNA polymerase II promoter	chromatin|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_epithelial(2;0.139)|Lung NSC(2;0.186)|Melanoma(2;0.211)		UCEC - Uterine corpus endometrioid carcinoma (2;0.0178)		CAGGGTGTGGGgtgtgtgtgtg	0.411			T	IGH@	MM								4	2	---	---	---	---	
PKD1L2	114780	broad.mit.edu	37	16	81155069	81155069	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81155069delA	uc002fgh.1	-						PKD1L2_uc002fgf.1_Intron|PKD1L2_uc002fgg.1_Intron	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a						neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						actccatctcaaaaaaaaaaa	0.239													8	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	82583466	82583466	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:82583466delA								MPHOSPH6 (379637 upstream) : CDH13 (77112 downstream)																							agcaagctgcaaacctcagct	0.000													4	2	---	---	---	---	
CDH13	1012	broad.mit.edu	37	16	83630037	83630037	+	Intron	DEL	T	-	-	rs5818459		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:83630037delT	uc002fgx.2	+						CDH13_uc010vns.1_Intron|CDH13_uc010vnt.1_Intron|CDH13_uc010vnu.1_Intron	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein						adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		TACCTGTGAATTTAGTCAATT	0.458													0	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	87165220	87165221	+	Intron	DEL	CT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:87165220_87165221delCT	uc002fjt.1	-											Homo sapiens cDNA FLJ43761 fis, clone TESTI2048109.																		gtctctctcactctctctctcc	0.233													4	2	---	---	---	---	
NLRP1	22861	broad.mit.edu	37	17	5463037	5463038	+	Frame_Shift_Ins	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5463037_5463038insC	uc002gci.2	-	4	1533_1534	c.978_979insG	c.(976-981)GAACCTfs	p.E326fs	NLRP1_uc002gcg.1_Frame_Shift_Ins_p.E326fs|NLRP1_uc002gck.2_Frame_Shift_Ins_p.E326fs|NLRP1_uc002gcj.2_Frame_Shift_Ins_p.E326fs|NLRP1_uc002gcl.2_Frame_Shift_Ins_p.E326fs|NLRP1_uc002gch.3_Frame_Shift_Ins_p.E326fs|NLRP1_uc010clh.2_Frame_Shift_Ins_p.E326fs	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	326_327					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				ACTATGCGAGGTTCTTGGGTAT	0.545													242	146	---	---	---	---	
NLRP1	22861	broad.mit.edu	37	17	5463038	5463039	+	Frame_Shift_Ins	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5463038_5463039insC	uc002gci.2	-	4	1532_1533	c.977_978insG	c.(976-978)GAAfs	p.E326fs	NLRP1_uc002gcg.1_Frame_Shift_Ins_p.E326fs|NLRP1_uc002gck.2_Frame_Shift_Ins_p.E326fs|NLRP1_uc002gcj.2_Frame_Shift_Ins_p.E326fs|NLRP1_uc002gcl.2_Frame_Shift_Ins_p.E326fs|NLRP1_uc002gch.3_Frame_Shift_Ins_p.E326fs|NLRP1_uc010clh.2_Frame_Shift_Ins_p.E326fs	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	326					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				CTATGCGAGGTTCTTGGGTATC	0.545													257	147	---	---	---	---	
FXR2	9513	broad.mit.edu	37	17	7502805	7502805	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7502805delC	uc002gia.1	-						FXR2_uc010vud.1_Intron	NM_004860	NP_004851	P51116	FXR2_HUMAN	fragile X mental retardation syndrome related							cytosolic large ribosomal subunit	protein binding|RNA binding	p.?(1)			0				READ - Rectum adenocarcinoma(115;0.17)		AAATGGTATTCAAACACACAC	0.358													4	2	---	---	---	---	
FXR2	9513	broad.mit.edu	37	17	7502809	7502809	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7502809delC	uc002gia.1	-						FXR2_uc010vud.1_Intron	NM_004860	NP_004851	P51116	FXR2_HUMAN	fragile X mental retardation syndrome related							cytosolic large ribosomal subunit	protein binding|RNA binding	p.?(1)			0				READ - Rectum adenocarcinoma(115;0.17)		GGTATTCAAACACACACACCC	0.353													4	2	---	---	---	---	
ALOX12B	242	broad.mit.edu	37	17	7984970	7984970	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7984970delT	uc002gjy.1	-							NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type						epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						tgtgtacacatttttttttta	0.000										Multiple Myeloma(8;0.094)			4	2	---	---	---	---	
WDR16	146845	broad.mit.edu	37	17	9528676	9528676	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9528676delA	uc002gly.2	+						WDR16_uc002glz.2_Intron|WDR16_uc010coc.2_Intron	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform							cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						tcttgccactaggatattccc	0.070													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	10162586	10162586	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10162586delA								GAS7 (60718 upstream) : MYH13 (41597 downstream)																							CTAAAAAAACAAAAAAAACAA	0.388													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	12432634	12432634	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12432634delA								MAP2K4 (385584 upstream) : MYOCD (136573 downstream)																							caagaaatagaaaaaaaaaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	12973168	12973169	+	IGR	INS	-	A	A	rs138959768	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12973168_12973169insA								ELAC2 (51809 upstream) : HS3ST3A1 (425837 downstream)																							atgttgatgagaaaaaaaaatt	0.045													2	5	---	---	---	---	
HS3ST3A1	9955	broad.mit.edu	37	17	13411533	13411533	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:13411533delA	uc002gob.1	-							NM_006042	NP_006033	Q9Y663	HS3SA_HUMAN	heparan sulfate D-glucosaminyl							Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 3 activity			ovary(1)|central_nervous_system(1)	2		all_lung(20;0.114)		UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GAAGAAAGAGAAAAAAAAATT	0.403													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	14825805	14825805	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:14825805delC								HS3ST3B1 (576313 upstream) : PMP22 (307292 downstream)																							TAAAACCTTGCCAGCAAACGA	0.473													1	5	---	---	---	---	
SREBF1	6720	broad.mit.edu	37	17	17719459	17719459	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17719459delT	uc002gru.1	-						SREBF1_uc002grp.1_Intron|SREBF1_uc002grq.1_Intron|SREBF1_uc002grr.1_Intron|SREBF1_uc002grs.1_Intron|SREBF1_uc002grt.1_Intron|MIR33B_hsa-mir-33b|MI0003646_5'Flank	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription						cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						CGTGTAGCTCTTACCCAGGGA	0.637													4	2	---	---	---	---	
CCDC144NL	339184	broad.mit.edu	37	17	20772809	20772810	+	Intron	INS	-	GG	GG	rs148295899		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:20772809_20772810insGG	uc002gyf.2	-						uc002gyg.1_Intron|uc002gyh.1_Intron	NM_001004306	NP_001004306	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family,												0						caaggaggaacggggaaagacg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21323652	21323653	+	IGR	DEL	AC	-	-	rs148026879		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21323652_21323653delAC								KCNJ12 (473 upstream) : C17orf51 (107919 downstream)																							GGGTGAGGGAACACACACGGCC	0.564													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	25307254	25307254	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25307254delA								None (None upstream) : WSB1 (313852 downstream)																							acttcaatttacaatagcatc	0.000													4	2	---	---	---	---	
SGK494	124923	broad.mit.edu	37	17	26926101	26926102	+	Intron	INS	-	G	G	rs138449345	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26926101_26926102insG	uc010waq.1	-						SPAG5_uc002hbq.2_5'Flank					Homo sapiens coiled-coil related protein DEEPEST (DEEPEST) mRNA, complete cds.												0						GGGTAGAgcccggggggcgggg	0.589													3	5	---	---	---	---	
EFCAB5	374786	broad.mit.edu	37	17	28389215	28389215	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28389215delA	uc002het.2	+						EFCAB5_uc010wbj.1_Intron|EFCAB5_uc010wbk.1_Intron|EFCAB5_uc010csd.2_Intron|EFCAB5_uc010cse.2_Intron|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a								calcium ion binding			ovary(1)|skin(1)	2						tttccctcacaaagacaagcc	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	32632612	32632612	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32632612delA								CCL11 (17413 upstream) : CCL8 (13454 downstream)																							GAGCACTCAGAagcatggagc	0.224													4	2	---	---	---	---	
ACACA	31	broad.mit.edu	37	17	35460261	35460261	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35460261delC	uc002hnm.2	-						ACACA_uc002hnk.2_Intron|ACACA_uc002hnl.2_Intron|ACACA_uc002hnn.2_Intron|ACACA_uc002hno.2_Intron|ACACA_uc010cuy.2_Intron|ACACA_uc010wdb.1_Intron|ACACA_uc010wdc.1_Intron	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2						acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	GAGTGATTATCCTATCATTGA	0.363													4	2	---	---	---	---	
MEOX1	4222	broad.mit.edu	37	17	41723981	41723982	+	Intron	INS	-	AAAC	AAAC	rs141477066	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41723981_41723982insAAAC	uc002idz.2	-						MEOX1_uc002iea.2_Intron|MEOX1_uc002ieb.2_Intron	NM_004527	NP_004518	P50221	MEOX1_HUMAN	mesenchyme homeobox 1 isoform 1							nucleus	sequence-specific DNA binding				0		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.0753)		gaaattgaggaaatttcaccta	0.010													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	45804619	45804632	+	IGR	DEL	GCCTGAGATTAAGG	-	-	rs66600554		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45804619_45804632delGCCTGAGATTAAGG								TBKBP1 (15192 upstream) : TBX21 (5978 downstream)																							CCTGCTTCCTGCCTGAGATTAAGGGCCTGTCTGC	0.584													3	3	---	---	---	---	
HOXB7	3217	broad.mit.edu	37	17	46685066	46685066	+	3'UTR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46685066delT	uc002inv.2	-	2					HOXB6_uc002ins.1_5'Flank|HOXB6_uc010dbh.1_5'Flank	NM_004502	NP_004493	P09629	HXB7_HUMAN	homeobox B7							nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TTAAATAGGGttttttttttg	0.264													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	49699058	49699058	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:49699058delT								UTP18 (323768 upstream) : CA10 (8617 downstream)																							TGGTTGGAAGTTTTCGTTCAT	0.448													4	2	---	---	---	---	
CA10	56934	broad.mit.edu	37	17	50201595	50201595	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:50201595delT	uc002itw.3	-						CA10_uc002itv.3_Intron|CA10_uc002itx.3_Intron|CA10_uc002ity.3_Intron|CA10_uc002itz.2_Intron	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X						brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			CCAGCATGGGTAATTTCTTGC	0.279													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	52764641	52764642	+	IGR	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:52764641_52764642delTG								KIF2B (862068 upstream) : TOM1L1 (213410 downstream)																							AAGTGAAGACtgtgtgtgtgtg	0.396													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	53654208	53654209	+	IGR	DEL	AT	-	-	rs138375912	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53654208_53654209delAT								MMD (154867 upstream) : TMEM100 (142781 downstream)																							CTGAAAAAAAATATTCAGCGTA	0.431													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	53773017	53773017	+	IGR	DEL	T	-	-	rs7220718	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53773017delT								MMD (273676 upstream) : TMEM100 (23973 downstream)																							ACTAAAAAAATAAGCAAATGT	0.308													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	54104721	54104721	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:54104721delT								PCTP (249974 upstream) : ANKFN1 (126115 downstream)																							caaacacttattagttacatg	0.040													4	2	---	---	---	---	
MRPS23	51649	broad.mit.edu	37	17	55926886	55926886	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:55926886delG	uc002ivc.2	-							NM_016070	NP_057154	Q9Y3D9	RT23_HUMAN	mitochondrial ribosomal protein S23						translation	intermediate filament cytoskeleton|mitochondrion|nuclear membrane|ribosome	structural constituent of ribosome				0	Breast(9;8.75e-08)					AACACAGAACGGGGAAGGACT	0.483													4	2	---	---	---	---	
BCAS3	54828	broad.mit.edu	37	17	59311782	59311782	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59311782delG	uc002iyv.3	+						BCAS3_uc002iyu.3_Intron|BCAS3_uc002iyw.3_Intron|BCAS3_uc002iyy.3_Intron|BCAS3_uc002iyz.3_Intron|BCAS3_uc002iza.3_Intron|BCAS3_uc002izb.3_Intron	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1							nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			TCTCAGCCAAGACCTTGCAGA	0.403													4	2	---	---	---	---	
RGS9	8787	broad.mit.edu	37	17	63150759	63150760	+	Intron	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63150759_63150760delTG	uc002jfe.2	+						RGS9_uc010dem.2_Intron|RGS9_uc002jfd.2_Intron|RGS9_uc002jff.2_Intron	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1						intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						GTCTCCTCTCTGTGTGTGGGGG	0.480													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	63308763	63308764	+	IGR	INS	-	T	T	rs138652669	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63308763_63308764insT								RGS9 (84944 upstream) : AXIN2 (215921 downstream)																							GAAGAACAGTGTATTTCTAGGT	0.426													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	65285599	65285600	+	IGR	INS	-	CA	CA	rs71822711		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65285599_65285600insCA								HELZ (44280 upstream) : PSMD12 (51020 downstream)																							acacacacactcacacacacac	0.376													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	69773207	69773207	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69773207delT								None (None upstream) : SOX9 (343954 downstream)																							CCCAGACTGATTTTGATGATA	0.443													4	2	---	---	---	---	
SLC39A11	201266	broad.mit.edu	37	17	70758950	70758953	+	Intron	DEL	TCTT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:70758950_70758953delTCTT	uc002jjb.2	-						SLC39A11_uc002jja.2_Intron	NM_001159770	NP_001153242	Q8N1S5	S39AB_HUMAN	solute carrier family 39, member 11 isoform 1						zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)	1						CAAACAGAACTCTTTCTCAGCTCC	0.475													3	5	---	---	---	---	
TNRC6C	57690	broad.mit.edu	37	17	76073823	76073823	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76073823delT	uc002jud.2	+						TNRC6C_uc002juf.2_Intron|TNRC6C_uc002jue.2_3'UTR	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2						gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			ATTCTCCCCCTTTTTCCCAGA	0.478													4	2	---	---	---	---	
HRNBP3	146713	broad.mit.edu	37	17	77406159	77406159	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77406159delC	uc010dhs.2	-						HRNBP3_uc010wua.1_Intron	NM_001082575	NP_001076044	A6NFN3	RFOX3_HUMAN	hexaribonucleotide binding protein 3						mRNA processing|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding				0			BRCA - Breast invasive adenocarcinoma(99;0.0577)|OV - Ovarian serous cystadenocarcinoma(97;0.112)			CTGCCACTCTCCACCCTTCAG	0.547													4	2	---	---	---	---	
RPTOR	57521	broad.mit.edu	37	17	78522837	78522837	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78522837delT	uc002jyt.1	+						RPTOR_uc002jys.2_Intron|RPTOR_uc010wuf.1_Intron|RPTOR_uc010wug.1_Intron|RPTOR_uc002jyr.1_Intron	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1						cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						TCCCAAGAAGTTTTTTTTGCC	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	79689000	79689000	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79689000delA								SLC25A10 (959 upstream) : GCGR (73026 downstream)																							cctgtctcagaaaaaaaaaaa	0.179													3	3	---	---	---	---	
USP14	9097	broad.mit.edu	37	18	205782	205782	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:205782delA	uc002kkf.1	+						USP14_uc002kkg.1_Intron|USP14_uc010wyr.1_Intron	NM_005151	NP_005142	P54578	UBP14_HUMAN	ubiquitin specific protease 14 isoform a						regulation of chemotaxis|regulation of proteasomal protein catabolic process|ubiquitin-dependent protein catabolic process	cell surface|cytoplasmic membrane-bounded vesicle|plasma membrane|proteasome complex	cysteine-type endopeptidase activity|endopeptidase inhibitor activity|proteasome binding|tRNA guanylyltransferase activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)	2		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				ctctgtttctaaaaaaaaatt	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	5866192	5866192	+	IGR	DEL	A	-	-	rs111376203		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5866192delA								EPB41L3 (235550 upstream) : TMEM200C (23992 downstream)																							ggtaaAAAAGAAAAAAAaaaa	0.005													4	3	---	---	---	---	
PTPRM	5797	broad.mit.edu	37	18	7960082	7960082	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7960082delT	uc002knn.3	+						PTPRM_uc010dkv.2_Intron|PTPRM_uc010wzl.1_Intron	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M						homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CACAGTGGGCTTTTTTATGTG	0.348													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	10516082	10516082	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10516082delT								APCDD1 (27385 upstream) : NAPG (9791 downstream)																							GTTACATCTCTTTTTTTTACT	0.438													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	12044692	12044692	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12044692delA								IMPA2 (13816 upstream) : CIDEA (209626 downstream)																							CTTTCATCCTAAACAAGTAAC	0.229													4	2	---	---	---	---	
SPIRE1	56907	broad.mit.edu	37	18	12565372	12565372	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12565372delT	uc002kre.2	-						SPIRE1_uc002krc.2_Intron|SPIRE1_uc010wzw.1_Intron|SPIRE1_uc010wzx.1_Intron|SPIRE1_uc010wzy.1_Intron	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a							cytoskeleton|perinuclear region of cytoplasm	actin binding				0						aaacttttccttttttttctt	0.000													4	2	---	---	---	---	
CEP192	55125	broad.mit.edu	37	18	13053377	13053377	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13053377delT	uc010xac.1	+						CEP192_uc010dlf.1_Intron|CEP192_uc010xad.1_Intron|CEP192_uc002kru.2_Intron|CEP192_uc002krv.2_5'Flank|CEP192_uc002krs.1_Intron	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa											ovary(4)|pancreas(1)	5						AAGGTGGTGGTTGGAAGTCTG	0.522													4	2	---	---	---	---	
C18orf1	753	broad.mit.edu	37	18	13569068	13569068	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13569068delA	uc002ksa.2	+						C18orf1_uc002ksb.2_Intron	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1							integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		ACATCATTTGAAAAAAAAAAT	0.348													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	14145018	14145019	+	IGR	DEL	TA	-	-	rs34266186	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:14145018_14145019delTA								ZNF519 (12589 upstream) : LOC284233 (192403 downstream)																							GGAGGCAGCGTACCCCCCCCAC	0.639													4	2	---	---	---	---	
ANKRD30B	374860	broad.mit.edu	37	18	14795853	14795854	+	Intron	DEL	TT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:14795853_14795854delTT	uc010dlo.2	+						ANKRD30B_uc010xak.1_Intron	NM_001145029	NP_001138501	Q9BXX2	AN30B_HUMAN	ankyrin repeat domain 30B											ovary(1)|skin(1)	2						CTAGGACTTATTTTTTTTTTTT	0.342													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	20435828	20435828	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:20435828delG								CTAGE1 (437950 upstream) : RBBP8 (77467 downstream)																							TGATGGAACTGGCCAGAAGTG	0.368													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	21178321	21178321	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21178321delC								NPC1 (11740 upstream) : ANKRD29 (1659 downstream)																							TAATCTGTAGCCCCCCACCAA	0.473													4	2	---	---	---	---	
ANKRD29	147463	broad.mit.edu	37	18	21191836	21191836	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21191836delA	uc002kun.2	-						ANKRD29_uc002kuo.2_Intron	NM_173505	NP_775776	Q8N6D5	ANR29_HUMAN	ankyrin repeat domain 29											ovary(3)|breast(1)	4	all_cancers(21;5.07e-05)|all_epithelial(16;2.49e-07)|Lung NSC(20;0.00211)|all_lung(20;0.00676)|Colorectal(14;0.0202)|Ovarian(20;0.127)					gtTAAAAAAGAAAAAAAAAAA	0.184													5	4	---	---	---	---	
LAMA3	3909	broad.mit.edu	37	18	21479634	21479634	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21479634delA	uc002kuq.2	+						LAMA3_uc002kur.2_Intron|LAMA3_uc002kus.3_Intron|LAMA3_uc002kut.3_Intron	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1						cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCATGCAAAGAAAAAAAAAAA	0.373													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	22541285	22541285	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22541285delC								HRH4 (481365 upstream) : ZNF521 (100603 downstream)																							AGCAGCTTATCCCACATTTCT	0.463													4	2	---	---	---	---	
ZNF521	25925	broad.mit.edu	37	18	22836769	22836769	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22836769delA	uc002kvk.2	-						ZNF521_uc010xbe.1_Intron|ZNF521_uc010dly.2_Intron|ZNF521_uc002kvl.2_Intron	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521						cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					CAGCTGAAGGAAAAAAAAAAC	0.418			T	PAX5	ALL								4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	22975003	22975003	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22975003delC								ZNF521 (42789 upstream) : SS18 (621216 downstream)																							ataataaacaccaagtaaaat	0.000													4	2	---	---	---	---	
CDH2	1000	broad.mit.edu	37	18	25630068	25630068	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25630068delC	uc002kwg.2	-							NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein						adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						ataagctgagccccacttggc	0.139													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	26134957	26134958	+	IGR	DEL	TC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:26134957_26134958delTC								CDH2 (377512 upstream) : None (None downstream)																							ctgtttgctgtctctctctctc	0.000													4	2	---	---	---	---	
C18orf34	374864	broad.mit.edu	37	18	30750042	30750042	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30750042delG	uc002kxn.2	-						C18orf34_uc010dme.1_Intron|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						gtgtgtgtgtgtatgtgttgt	0.313													4	2	---	---	---	---	
C18orf34	374864	broad.mit.edu	37	18	30750044	30750044	+	Intron	DEL	A	-	-	rs76705073		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30750044delA	uc002kxn.2	-						C18orf34_uc010dme.1_Intron|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						gtgtgtgtgtatgtgttgtgt	0.308													4	2	---	---	---	---	
DTNA	1837	broad.mit.edu	37	18	32242471	32242471	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32242471delT	uc010dmj.2	+						DTNA_uc002kxu.2_Intron|DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Intron|DTNA_uc002kxw.2_Intron|DTNA_uc002kxx.2_Intron|DTNA_uc002kxz.2_Intron|DTNA_uc002kxy.2_Intron	NM_032975	NP_116757	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 2						neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						TACCCAAGGATTTACAAAATT	0.403													4	2	---	---	---	---	
LOC647946	647946	broad.mit.edu	37	18	36950285	36950285	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:36950285delA	uc010xcj.1	-						LOC647946_uc002lal.1_Intron	NR_024391				Homo sapiens cDNA FLJ33284 fis, clone ASTRO2009458.												0						ttaactaattaaaaaaaaact	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	38373312	38373312	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38373312delT								LOC647946 (993030 upstream) : KC6 (686926 downstream)																							tttttgtaagtttttttaatt	0.075													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	41764115	41764115	+	IGR	DEL	A	-	-	rs72261429		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:41764115delA								SYT4 (906500 upstream) : SETBP1 (496023 downstream)																							catagaagttaaaaaaaaAAa	0.000													4	2	---	---	---	---	
PSTPIP2	9050	broad.mit.edu	37	18	43580866	43580867	+	Intron	INS	-	CAAA	CAAA	rs141776918	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43580866_43580867insCAAA	uc002lbp.3	-						PSTPIP2_uc002lbq.3_Intron	NM_024430	NP_077748	Q9H939	PPIP2_HUMAN	proline-serine-threonine phosphatase interacting							membrane				ovary(1)	1						AAGCTGTGAATCAGTTAGCTAA	0.203													4	2	---	---	---	---	
MYO5B	4645	broad.mit.edu	37	18	47438271	47438271	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47438271delT	uc002leb.2	-							NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB						protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		AATGGGTTGCTTTTTTTTCTA	0.408													4	2	---	---	---	---	
SMAD4	4089	broad.mit.edu	37	18	48605008	48605008	+	3'UTR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48605008delT	uc010xdp.1	+	12					SMAD4_uc002lfb.3_3'UTR	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4						BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity			pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		ATTAAAACAATTTTTTTTTTC	0.343									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				4	3	---	---	---	---	
DCC	1630	broad.mit.edu	37	18	50185131	50185131	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:50185131delA	uc002lfe.1	+							NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor						apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		GAAAATATTTAAAAAAAAATA	0.308													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	51482532	51482533	+	IGR	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51482532_51482533insG								DCC (424750 upstream) : MBD2 (198042 downstream)																							CTTTTTTTTAAAAAAAACCTAT	0.119													4	2	---	---	---	---	
RAB27B	5874	broad.mit.edu	37	18	52542772	52542773	+	Intron	DEL	GT	-	-	rs72190159		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:52542772_52542773delGT	uc002lfr.2	+							NM_004163	NP_004154	O00194	RB27B_HUMAN	RAB27B, member RAS oncogene family						protein transport|small GTPase mediated signal transduction	Golgi apparatus|plasma membrane	GTP binding|GTPase activity				0				Colorectal(16;0.0273)|READ - Rectum adenocarcinoma(59;0.219)		CTTTGTCTAGGTTTTTTTTTTT	0.376													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	56469234	56469234	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56469234delG								MALT1 (51864 upstream) : ZNF532 (60827 downstream)																							TGGGGGTCCTGGGGAAGCATG	0.488													4	2	---	---	---	---	
SEC11C	90701	broad.mit.edu	37	18	56805364	56805364	+	5'Flank	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56805364delT	uc002lht.2	+						SEC11C_uc010dpo.1_5'Flank|SEC11C_uc010xej.1_5'Flank	NM_033280	NP_150596	Q9BY50	SC11C_HUMAN	SEC11-like 3						energy reserve metabolic process|regulation of insulin secretion|signal peptide processing	endoplasmic reticulum membrane|integral to membrane|microsome	serine-type peptidase activity				0		Colorectal(73;0.175)				cctcaatctcttttcttcttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	56835677	56835677	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56835677delT								SEC11C (9616 upstream) : GRP (51723 downstream)																							tgaaagaaagttttttttttt	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	60269939	60269942	+	IGR	DEL	AAAC	-	-	rs3084218		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:60269939_60269942delAAAC								ZCCHC2 (15977 upstream) : PHLPP1 (112792 downstream)																							acaaaacaaaaaacaaacaaacaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	61191357	61191357	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61191357delT								SERPINB5 (19040 upstream) : SERPINB12 (32036 downstream)																							aaagaaaaacttttttttttg	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	68242632	68242632	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:68242632delT								SOCS6 (245198 upstream) : None (None downstream)																							aggtgatgggttgatctgtgc	0.035													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	69673912	69673913	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:69673912_69673913insT								None (None upstream) : CBLN2 (530002 downstream)																							TAAttttttgcttttttttctt	0.144													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	71067457	71067457	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71067457delG								NETO1 (532647 upstream) : FBXO15 (673131 downstream)																							ccacagttctggaaaatcagt	0.119													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	71227222	71227222	+	IGR	DEL	A	-	-	rs5826274		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71227222delA								NETO1 (692412 upstream) : FBXO15 (513366 downstream)																							acaaacaaacaaaaaaaaaac	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	71614629	71614630	+	IGR	DEL	TG	-	-	rs78139055	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71614629_71614630delTG								None (None upstream) : FBXO15 (125958 downstream)																							CCTTTTTTTTTGTTGTTTGCTT	0.396													8	4	---	---	---	---	
ZNF407	55628	broad.mit.edu	37	18	72627278	72627279	+	Intron	DEL	GT	-	-	rs111925143		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72627278_72627279delGT	uc002llw.2	+						ZNF407_uc010dqu.1_Intron	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		CGAATCGGGAgtgtgtgtgtgt	0.327													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	72799411	72799412	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72799411_72799412insA								ZNF407 (21783 upstream) : ZADH2 (109867 downstream)																							TGTTCTGGAAGGTTCTCTCAGC	0.609													4	2	---	---	---	---	
TSHZ1	10194	broad.mit.edu	37	18	72991151	72991151	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72991151delG	uc002lly.2	+							NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		TGGGGTGGAAGGGAGGCCGTC	0.507													4	2	---	---	---	---	
ZNF236	7776	broad.mit.edu	37	18	74679398	74679399	+	Intron	INS	-	GGT	GGT	rs145977669		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74679398_74679399insGGT	uc002lmi.2	+						ZNF236_uc002lmj.2_Intron	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236						cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TTGTTGTTGGAGGTGGTGTGCT	0.262													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	76628370	76628370	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76628370delA								None (None upstream) : SALL3 (111905 downstream)																							AGCAGCCGGGAAAGGGGAAAA	0.498													4	2	---	---	---	---	
C19orf77	284422	broad.mit.edu	37	19	3476736	3476737	+	Intron	INS	-	TGGA	TGGA	rs35402201		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3476736_3476737insTGGA	uc010xhk.1	-							NM_001136503	NP_001129975	O75264	CS077_HUMAN	hypothetical protein LOC284422 precursor							integral to membrane					0						GCCCCCAGCCCtggatggatgg	0.317													5	5	---	---	---	---	
TJP3	27134	broad.mit.edu	37	19	3738078	3738079	+	Intron	INS	-	TGGCTGTGTCCAT	TGGCTGTGTCCAT	rs142823722	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3738078_3738079insTGGCTGTGTCCAT	uc010xhv.1	+						TJP3_uc010xhs.1_Intron|TJP3_uc010xht.1_Intron|TJP3_uc010xhu.1_Intron|TJP3_uc010xhw.1_Intron	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3							tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGAGAGCAGATGGCTGTGTCC	0.530													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	4138201	4138205	+	IGR	DEL	TTTTG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4138201_4138205delTTTTG								MAP2K2 (14075 upstream) : CREB3L3 (15424 downstream)																							cttgttctttttttgttttgttttg	0.132													3	4	---	---	---	---	
PDE4A	5141	broad.mit.edu	37	19	10563290	10563291	+	Intron	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10563290_10563291delGT	uc002moj.2	+						PDE4A_uc002mok.2_Intron|PDE4A_uc002mol.2_Intron|PDE4A_uc002mom.2_5'Flank|PDE4A_uc002mon.2_5'Flank	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1						signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	CTGTCTCCGGgtgtgtgtgtgt	0.411													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	12336253	12336254	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12336253_12336254insT	uc002mtk.1	+						uc010dyq.1_Intron|ZNF44_uc002mtl.2_Intron|ZNF44_uc010dyr.1_Intron					Homo sapiens cDNA FLJ13242 fis, clone OVARC1000578.																		tttttagcttgttttttttaat	0.000													4	2	---	---	---	---	
ZNF563	147837	broad.mit.edu	37	19	12437454	12437454	+	Intron	DEL	A	-	-	rs34093215		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12437454delA	uc002mtp.2	-						ZNF563_uc002mtq.2_Intron	NM_145276	NP_660319	Q8TA94	ZN563_HUMAN	zinc finger protein 563						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						actctgtctcaaaaaaaaaaa	0.000													3	3	---	---	---	---	
CACNA1A	773	broad.mit.edu	37	19	13411132	13411132	+	Intron	DEL	T	-	-	rs138629534		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13411132delT	uc010dze.2	-						CACNA1A_uc010dzc.2_Intron|CACNA1A_uc002mwy.3_Intron|CACNA1A_uc010xne.1_Intron	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3						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)	acaggtgggattttttttttc	0.030													4	2	---	---	---	---	
MRI1	84245	broad.mit.edu	37	19	13877037	13877037	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13877037delA	uc002mxe.2	+						MRI1_uc002mxf.2_Intron	NM_001031727	NP_001026897	Q9BV20	MTNA_HUMAN	translation initiation factor eIF-2B subunit						L-methionine salvage from methylthioadenosine	cell projection|cytoplasm|nucleus	identical protein binding|S-methyl-5-thioribose-1-phosphate isomerase activity			ovary(1)	1						ctttatccacaaaaaaaatgg	0.159													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	14405724	14405724	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14405724delA								LPHN1 (88727 upstream) : CD97 (86489 downstream)																							actccatctcaaaaaaaaaga	0.249													4	2	---	---	---	---	
NDUFB7	4713	broad.mit.edu	37	19	14685374	14685375	+	5'Flank	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14685374_14685375insC	uc002mzg.2	-							NM_004146	NP_004137	P17568	NDUB7_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta						mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)	1					NADH(DB00157)	tccctgtgtgacccccagaagt	0.119													4	2	---	---	---	---	
CYP4F2	8529	broad.mit.edu	37	19	15996482	15996483	+	Intron	INS	-	G	G	rs3093164		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15996482_15996483insG	uc002nbs.1	-						CYP4F2_uc010xot.1_Intron	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,						leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						GCTGAACACGTCTAAGTGGCGT	0.436													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	16158382	16158382	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16158382delT								FLJ25328 (5467 upstream) : TPM4 (19935 downstream)																							cccatgcacatttttttttac	0.000													4	2	---	---	---	---	
SFRS14	10147	broad.mit.edu	37	19	19116156	19116156	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19116156delC	uc002nkx.2	-						SFRS14_uc002nkz.1_Intron|SFRS14_uc002nla.1_Intron|SFRS14_uc002nlb.2_Intron|SFRS14_uc010xqk.1_Intron	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14						mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			tgtgccaagtccccccagtta	0.174													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	20873513	20873513	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:20873513delT								ZNF626 (29111 upstream) : ZNF85 (232567 downstream)																							AGCAATTTACTTTTTTTTTGG	0.055													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	24088390	24088390	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:24088390delA								RPSAP58 (77473 upstream) : ZNF254 (127857 downstream)																							aacttgatgcaaaaaaaaaag	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	27870888	27870889	+	IGR	INS	-	T	T	rs71243293		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:27870888_27870889insT								None (None upstream) : LOC148189 (410513 downstream)																							caattgagcagttatgaaacaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	27882590	27882590	+	IGR	DEL	A	-	-	rs111531532		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:27882590delA								None (None upstream) : LOC148189 (398812 downstream)																							atcttcacataaaaattagac	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	31439610	31439610	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31439610delT								ZNF536 (390645 upstream) : DKFZp566F0947 (201173 downstream)																							TTGCATTGCCTTttttttttc	0.075													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	31929579	31929579	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31929579delC								TSHZ3 (89389 upstream) : ZNF507 (906935 downstream)																							GGCTGGGCAGCCCCCACTGTG	0.522													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	32325541	32325541	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:32325541delG								TSHZ3 (485351 upstream) : ZNF507 (510973 downstream)																							CTGCTGAAAAGAAAGTCTCTC	0.473													6	3	---	---	---	---	
HPN	3249	broad.mit.edu	37	19	35553161	35553161	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35553161delG	uc002nxq.1	+						HPN_uc002nxr.1_Intron|HPN_uc002nxs.1_Intron|HPN_uc010xsh.1_Intron|HPN_uc002nxt.1_Intron|LOC100128675_uc010xsi.1_Intron	NM_002151	NP_002142	P05981	HEPS_HUMAN	hepsin						cell growth|proteolysis	cytoplasm|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2	all_lung(56;5.38e-08)|Lung NSC(56;8.61e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)		Coagulation factor VIIa(DB00036)	tttcttgtctgggtgatgaaa	0.000													4	2	---	---	---	---	
LOC100128675	100128675	broad.mit.edu	37	19	35593965	35593965	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35593965delT	uc010xsi.1	-						LOC100128675_uc002nxu.2_Intron	NR_024562				SubName: Full=cDNA FLJ57934;												0						actccttttcttttttttttt	0.000													3	3	---	---	---	---	
FXYD7	53822	broad.mit.edu	37	19	35636628	35636628	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35636628delC	uc002nye.1	+						FXYD7_uc010xsp.1_Intron|FXYD7_uc002nyf.1_Intron	NM_022006	NP_071289	P58549	FXYD7_HUMAN	FXYD domain-containing ion transport regulator							integral to membrane	ion channel activity				0	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;2.32e-21)|OV - Ovarian serous cystadenocarcinoma(14;3.17e-20)|all cancers(14;2.43e-18)|LUSC - Lung squamous cell carcinoma(66;0.0849)			ttgctttattcaaatattcct	0.139													4	2	---	---	---	---	
ZNF529	57711	broad.mit.edu	37	19	37083497	37083497	+	Intron	DEL	A	-	-	rs79717661		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37083497delA	uc010xth.1	-						ZNF529_uc010xti.1_Intron|ZNF529_uc002oej.2_Intron|uc002oei.2_Intron	NM_001145649	NP_001139121	Q6P280	ZN529_HUMAN	zinc finger protein 529 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	Esophageal squamous(110;0.198)					ctctgtctccaaaaaaaaaaa	0.000													4	2	---	---	---	---	
KCNK6	9424	broad.mit.edu	37	19	38810206	38810206	+	5'Flank	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38810206delG	uc002oic.2	+							NM_004823	NP_004814	Q9Y257	KCNK6_HUMAN	potassium channel, subfamily K, member 6							voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)	1	all_cancers(60;5.83e-07)		Lung(45;0.00047)|LUSC - Lung squamous cell carcinoma(53;0.000613)		Ibutilide(DB00308)|Quinidine(DB00908)	TGTGCGCGATGGGGGGCGACT	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	40075738	40075739	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40075738_40075739insC								EID2 (44900 upstream) : LGALS13 (17430 downstream)																							ACCTAGGATTTCCCCCAAAGTG	0.426													4	2	---	---	---	---	
EGLN2	112398	broad.mit.edu	37	19	41291621	41291621	+	Intron	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41291621delG	uc010ehd.2	+						RAB4B_uc002opc.1_Intron|RAB4B_uc002opd.1_Intron|RAB4B_uc002ope.1_Intron|RAB4B_uc002opf.1_Intron	NM_080732	NP_542770	Q96KS0	EGLN2_HUMAN	EGL nine (C.elegans) homolog 2						cell redox homeostasis|estrogen receptor signaling pathway|positive regulation of protein catabolic process|regulation of cell growth|response to hypoxia	cytoplasm|nucleus	ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|oxygen sensor activity			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Vitamin C(DB00126)	TGCTGCTGATGGGTAGACTCT	0.308													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	47011498	47011499	+	IGR	INS	-	A	A	rs148188408	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47011498_47011499insA								PNMAL2 (12329 upstream) : CALM3 (93013 downstream)																							caaaacaaaacaaaaaaaacaC	0.228													1	5	---	---	---	---	
AP2S1	1175	broad.mit.edu	37	19	47343078	47343079	+	Intron	INS	-	TA	TA	rs142553167		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47343078_47343079insTA	uc002pft.1	-						AP2S1_uc002pfu.1_Intron	NM_004069	NP_004060	P53680	AP2S1_HUMAN	adaptor-related protein complex 2, sigma 1						axon guidance|clathrin coat assembly|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|regulation of endocytosis|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	protein transporter activity				0		all_cancers(25;1.24e-06)|all_epithelial(76;1.09e-05)|all_lung(116;0.00019)|Lung NSC(112;0.000601)|Ovarian(192;0.0221)|all_neural(266;0.0459)|Breast(70;0.128)		OV - Ovarian serous cystadenocarcinoma(262;3.86e-05)|all cancers(93;0.000107)|Epithelial(262;0.00325)|GBM - Glioblastoma multiforme(486;0.0336)		gtgcctaaccccctctgatcct	0.000													6	4	---	---	---	---	
AP2S1	1175	broad.mit.edu	37	19	47343083	47343086	+	Intron	DEL	TGAT	-	-	rs71981331		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47343083_47343086delTGAT	uc002pft.1	-						AP2S1_uc002pfu.1_Intron	NM_004069	NP_004060	P53680	AP2S1_HUMAN	adaptor-related protein complex 2, sigma 1						axon guidance|clathrin coat assembly|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|regulation of endocytosis|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	protein transporter activity				0		all_cancers(25;1.24e-06)|all_epithelial(76;1.09e-05)|all_lung(116;0.00019)|Lung NSC(112;0.000601)|Ovarian(192;0.0221)|all_neural(266;0.0459)|Breast(70;0.128)		OV - Ovarian serous cystadenocarcinoma(262;3.86e-05)|all cancers(93;0.000107)|Epithelial(262;0.00325)|GBM - Glioblastoma multiforme(486;0.0336)		taaccccctctgatcctggagagt	0.000													6	4	---	---	---	---	
CCDC9	26093	broad.mit.edu	37	19	47774990	47775003	+	3'UTR	DEL	GCGCGCGCGCGCGC	-	-	rs72170278		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47774990_47775003delGCGCGCGCGCGCGC	uc010xym.1	+	12						NM_015603	NP_056418	Q9Y3X0	CCDC9_HUMAN	coiled-coil domain containing 9												0		all_cancers(25;0.0432)|all_epithelial(76;0.00812)|Medulloblastoma(540;0.0208)|all_neural(266;0.0416)|Hepatocellular(1079;0.114)		OV - Ovarian serous cystadenocarcinoma(262;8.51e-95)|Epithelial(262;1.15e-92)|all cancers(93;7.67e-84)|GBM - Glioblastoma multiforme(486;0.024)|STAD - Stomach adenocarcinoma(1328;0.183)		gtgtgtgtgtgcgcgcgcgcgcgcgcgcgcgcgc	0.458													7	4	---	---	---	---	
HSD17B14	51171	broad.mit.edu	37	19	49318097	49318097	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49318097delA	uc002pkv.1	-						HSD17B14_uc010emk.1_Intron	NM_016246	NP_057330	Q9BPX1	DHB14_HUMAN	dehydrogenase/reductase (SDR family) member 10						steroid catabolic process	centrosome|cytosol	estradiol 17-beta-dehydrogenase activity|protein binding|testosterone 17-beta-dehydrogenase (NADP+) activity				0		all_epithelial(76;7e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000341)|all cancers(93;0.000764)|GBM - Glioblastoma multiforme(486;0.0233)|Epithelial(262;0.0346)		ctccatctttaaaaaaaaaaa	0.184													3	3	---	---	---	---	
LRRC4B	94030	broad.mit.edu	37	19	51067978	51067978	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51067978delA	uc002pss.2	-							NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor							cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		GTGGGGTGAGAAGGGATGAAA	0.587													4	2	---	---	---	---	
ZNF350	59348	broad.mit.edu	37	19	52485950	52485950	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52485950delA	uc002pyd.2	-							NM_021632	NP_067645	Q9GZX5	ZN350_HUMAN	zinc finger protein 350						negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			breast(1)	1		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0179)		ttaaagtttgaaaaaaaagtt	0.000													4	2	---	---	---	---	
ZNF610	162963	broad.mit.edu	37	19	52852826	52852826	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52852826delA	uc002pyx.3	+						ZNF610_uc002pyy.3_Intron|ZNF610_uc002pyz.3_Intron|ZNF610_uc002pza.2_Intron	NM_001161426	NP_001154898	Q8N9Z0	ZN610_HUMAN	zinc finger protein 610 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		GAAGTCACGTAtttttttttt	0.279													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	55002056	55002057	+	IGR	DEL	TC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55002056_55002057delTC								CDC42EP5 (17634 upstream) : LAIR2 (7043 downstream)																							tttgcttctttctctctctctt	0.000													4	2	---	---	---	---	
ZSCAN5A	79149	broad.mit.edu	37	19	56837752	56837752	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56837752delA	uc002qmr.2	-							NM_024303	NP_077279	Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A						viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						agtacacattaggattctcta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	56948985	56948985	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56948985delT								ZNF583 (12585 upstream) : ZNF667 (2219 downstream)																							atgccttgcattttttttttc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	148242	148243	+	IGR	DEL	TT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:148242_148243delTT								DEFB127 (8438 upstream) : DEFB128 (20284 downstream)																							tttcatttcattttttttttta	0.000													4	2	---	---	---	---	
RBCK1	10616	broad.mit.edu	37	20	406951	406952	+	Intron	INS	-	T	T	rs143532093	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:406951_406952insT	uc002wdp.3	+						RBCK1_uc010zpm.1_Intron|RBCK1_uc002wdq.3_Intron|RBCK1_uc010fzy.2_Intron|RBCK1_uc002wdr.3_Intron	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing						interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				gtcttactctatttttttgtac	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	1087854	1087855	+	IGR	DEL	TG	-	-	rs115981751	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1087854_1087855delTG								RSPO4 (104950 upstream) : PSMF1 (6051 downstream)																							AAAGCCAAGCtgtgtgtgtgtg	0.208													3	3	---	---	---	---	
SNPH	9751	broad.mit.edu	37	20	1286882	1286882	+	3'UTR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1286882delG	uc002wes.2	+	6					SNPH_uc002wet.2_3'UTR	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin						synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						GCATCCCAAAGCTTCGATGGA	0.527													4	2	---	---	---	---	
PRNP	5621	broad.mit.edu	37	20	4673330	4673331	+	Intron	INS	-	TTT	TTT	rs141383807	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4673330_4673331insTTT	uc002wku.2	+						PRNP_uc002wkv.2_Intron|PRNP_uc002wkw.2_Intron|PRNP_uc002wkx.2_Intron|PRNP_uc002wkt.1_Intron|PRNP_uc002wky.2_Intron	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein						axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding			central_nervous_system(1)	1					Tetracycline(DB00759)	TGAAGAAAATCttttcttccta	0.119													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	5224548	5224549	+	IGR	DEL	AA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5224548_5224549delAA								CDS2 (52561 upstream) : PROKR2 (58138 downstream)																							TATGTTAAGGAAAAAAAAAATC	0.272													4	2	---	---	---	---	
GPCPD1	56261	broad.mit.edu	37	20	5527435	5527435	+	3'UTR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5527435delT	uc002wme.3	-	20					GPCPD1_uc002wmd.3_3'UTR	NM_019593	NP_062539	Q9NPB8	GPCP1_HUMAN	hypothetical protein LOC56261						glycerol metabolic process|lipid metabolic process		carbohydrate binding|glycerophosphodiester phosphodiesterase activity				0						ACAAACAGCCTTTTTTTTTTA	0.383													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	7224399	7224399	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7224399delT								BMP2 (463489 upstream) : HAO1 (639232 downstream)																							agccatcttattttttttttc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	7249749	7249749	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7249749delA								BMP2 (488839 upstream) : HAO1 (613882 downstream)																							CTGGTCAATGAAAAAAAAATG	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	7312070	7312071	+	IGR	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7312070_7312071insG								BMP2 (551160 upstream) : HAO1 (551560 downstream)																							tttcgagaaaaaaaaaaaaaga	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	9987491	9987491	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9987491delA								PAK7 (167804 upstream) : ANKRD5 (28206 downstream)																							TCATTGTGACAAAAAAAAAGC	0.383													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	10842962	10842963	+	IGR	INS	-	T	T	rs113413600		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10842962_10842963insT								JAG1 (188268 upstream) : None (None downstream)																							TGATTTGGGAATTTTTTTTTTT	0.317													5	5	---	---	---	---	
SEL1L2	80343	broad.mit.edu	37	20	13937574	13937574	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13937574delA	uc010gcf.2	-						SEL1L2_uc002woq.3_Intron|SEL1L2_uc010zrl.1_Intron|SEL1L2_uc002wor.2_Intron	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor							integral to membrane	binding			ovary(2)	2						TTTGGGAAGTAAAAAAAATGC	0.274													4	2	---	---	---	---	
MACROD2	140733	broad.mit.edu	37	20	14749963	14749963	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:14749963delC	uc002wou.2	+						MACROD2_uc002wot.2_Intron|MACROD2_uc002wox.2_Intron	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				TATTTCTTTACCCACCTGTGA	0.343													4	2	---	---	---	---	
MACROD2	140733	broad.mit.edu	37	20	15018330	15018330	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:15018330delT	uc002wou.2	+						MACROD2_uc002wot.2_Intron	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				ACTTTAACTCTTTTTTTtttt	0.164													2	4	---	---	---	---	
MACROD2	140733	broad.mit.edu	37	20	15956111	15956111	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:15956111delA	uc002wou.2	+						MACROD2_uc002wot.2_Intron|MACROD2_uc002woz.2_Intron|MACROD2_uc002wpb.2_Intron	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				gtttaatggcaaaaaaaaagt	0.000													4	2	---	---	---	---	
KIF16B	55614	broad.mit.edu	37	20	16387504	16387505	+	Intron	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:16387504_16387505insA	uc002wpg.1	-						KIF16B_uc010gch.1_Intron|KIF16B_uc010gci.1_Intron|KIF16B_uc010gcj.1_Intron	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23						cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						TTGATACTGGTAAAAGTAGAAA	0.322													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	17590496	17590497	+	IGR	DEL	TT	-	-	rs148600479		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17590496_17590497delTT								DSTN (1845 upstream) : RRBP1 (3826 downstream)																							GAAAGCTGACTTAGTCTCATCT	0.386													4	3	---	---	---	---	
SNX5	27131	broad.mit.edu	37	20	17926141	17926141	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17926141delT	uc002wqc.2	-						SNX5_uc002wqb.2_Intron|SNX5_uc002wqd.2_Intron|SNX5_uc002wqe.2_Intron	NM_014426	NP_055241	Q9Y5X3	SNX5_HUMAN	sorting nexin 5						cell communication|pinocytosis|protein transport	cytoplasmic vesicle membrane|early endosome membrane|extrinsic to endosome membrane|extrinsic to internal side of plasma membrane|macropinocytic cup|phagocytic cup|ruffle	phosphatidylinositol binding			large_intestine(1)	1						ATTGGCATCATTTTTTAAAGT	0.333													4	2	---	---	---	---	
SLC24A3	57419	broad.mit.edu	37	20	19404559	19404560	+	Intron	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19404559_19404560insG	uc002wrl.2	+							NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24							integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						CTGGAGGGGTAGGGGAGGGGTG	0.490													4	2	---	---	---	---	
RALGAPA2	57186	broad.mit.edu	37	20	20573946	20573946	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20573946delC	uc002wrz.2	-						RALGAPA2_uc010gcx.2_Intron|RALGAPA2_uc010zsg.1_Intron	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250						activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CCTCATGTTTCCCAGGTTGTC	0.398													4	2	---	---	---	---	
NAPB	63908	broad.mit.edu	37	20	23356142	23356144	+	3'UTR	DEL	TAT	-	-	rs148611575		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23356142_23356144delTAT	uc002wta.2	-	11					NAPB_uc002wtc.2_3'UTR|NAPB_uc002wtb.2_3'UTR|NAPB_uc002wtd.3_RNA	NM_022080	NP_071363	Q9H115	SNAB_HUMAN	N-ethylmaleimide-sensitive factor attachment						intracellular protein transport|vesicle-mediated transport	membrane				ovary(1)	1	Lung NSC(19;0.0646)|Colorectal(13;0.0993)|all_lung(19;0.143)					TTGTAGGATATATTATTAGGTGG	0.404													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	23871888	23871889	+	IGR	INS	-	C	C			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23871888_23871889insC								CST5 (11508 upstream) : GGTLC1 (93802 downstream)																							tatcacaatcacatcaccatta	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	24122559	24122559	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24122559delT								GGTLC1 (153143 upstream) : TMEM90B (327276 downstream)																							GATTTTTATCTTTTTCTTTCC	0.403													4	2	---	---	---	---	
TMEM90B	79953	broad.mit.edu	37	20	24603694	24603694	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24603694delA	uc002wtw.1	+							NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B						response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						gcaaCTctgtaatctgagcta	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	25582239	25582240	+	IGR	INS	-	C	C	rs116745215	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25582239_25582240insC								NINL (16086 upstream) : NANP (11335 downstream)																							GCACACCCCCTACACACACCTC	0.277													4	2	---	---	---	---	
FAM182B	728882	broad.mit.edu	37	20	25756137	25756137	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25756137delC	uc010zth.1	-						FAM182B_uc002wvd.1_Intron|FAM182B_uc002wve.2_Intron|FAM182B_uc010zti.1_Intron	NR_027061				Homo sapiens cDNA FLJ30282 fis, clone BRACE2002803.												0						TTTTTTTTAACCACTGGCAAT	0.308													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	25878205	25878205	+	IGR	DEL	A	-	-	rs58096501		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25878205delA								FAM182B (29419 upstream) : LOC100134868 (112230 downstream)																							ATACACTGGTAAAAAAAAAAA	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26248741	26248742	+	IGR	DEL	TC	-	-	rs112845257		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26248741_26248742delTC								MIR663 (59827 upstream) : None (None downstream)																							CTACTTCATATCCAGCTTCCCA	0.267													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29425660	29425660	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29425660delT								None (None upstream) : FRG1B (186219 downstream)																							CAATTATCAATTAGCTACAGA	0.274													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29545921	29545923	+	IGR	DEL	AGA	-	-	rs73620359		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29545921_29545923delAGA								None (None upstream) : FRG1B (65956 downstream)																							ACAAAAACAGAGAAGGACAGATC	0.493													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29582755	29582755	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29582755delC								None (None upstream) : FRG1B (29124 downstream)																							ACTACTTCATCCTACTCATCA	0.483													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29588351	29588352	+	IGR	DEL	GA	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29588351_29588352delGA								None (None upstream) : FRG1B (23527 downstream)																							ttattttgttgagagttttatc	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29588566	29588566	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29588566delA								None (None upstream) : FRG1B (23313 downstream)																							tttgtattttattgagaattt	0.000													8	6	---	---	---	---	
ASXL1	171023	broad.mit.edu	37	20	31008131	31008131	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31008131delT	uc002wxs.2	+						ASXL1_uc002wxr.1_Intron|ASXL1_uc010geb.2_Intron	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						GATATTTTGCTTTTTTTTTTA	0.333			F|N|Mis		MDS|CMML								4	3	---	---	---	---	
EDEM2	55741	broad.mit.edu	37	20	33713637	33713637	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33713637delA	uc002xbo.2	-						EDEM2_uc010zuv.1_Intron|EDEM2_uc010zus.1_Intron|EDEM2_uc002xbq.2_Intron|EDEM2_uc010zut.1_Intron|EDEM2_uc002xbp.2_Intron|EDEM2_uc002xbn.2_Intron|EDEM2_uc002xbr.2_Intron|EDEM2_uc010zuu.1_Intron	NM_018217	NP_060687	Q9BV94	EDEM2_HUMAN	ER degradation enhancer, mannosidase alpha-like						post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00936)			gataagctctaagatccttcc	0.333													4	2	---	---	---	---	
EPB41L1	2036	broad.mit.edu	37	20	34726805	34726805	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34726805delT	uc002xev.2	+						EPB41L1_uc002xeu.2_Intron|EPB41L1_uc010zvo.1_Intron|EPB41L1_uc002xew.2_Intron|EPB41L1_uc002xex.2_Intron|EPB41L1_uc002xey.2_Intron|EPB41L1_uc002xez.2_Intron	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1						cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					TTGTGTCCCATTTTTTTTTTC	0.348											OREG0025898	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	3	---	---	---	---	
GHRH	2691	broad.mit.edu	37	20	35889961	35889961	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35889961delA	uc002xgs.2	-						GHRH_uc002xgt.2_Intron	NM_021081	NP_066567	P01286	SLIB_HUMAN	growth hormone releasing hormone preproprotein						activation of adenylate cyclase activity by G-protein signaling pathway|adenohypophysis development|growth hormone secretion|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of circadian sleep/wake cycle, REM sleep|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to food	extracellular space|terminal button	growth hormone-releasing hormone activity|growth hormone-releasing hormone receptor binding			ovary(1)	1		Myeloproliferative disorder(115;0.00878)				CAGCACCATCAAAAGCCTATT	0.567													4	2	---	---	---	---	
CTNNBL1	56259	broad.mit.edu	37	20	36407392	36407392	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36407392delT	uc010zvw.1	+						CTNNBL1_uc002xhh.2_Intron|CTNNBL1_uc002xhi.2_Intron|CTNNBL1_uc002xhj.2_Intron	NM_030877	NP_110517	Q8WYA6	CTBL1_HUMAN	beta catenin-like 1						apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)				GTGTTTTGGCTTTTTTTTTTG	0.318													3	3	---	---	---	---	
VSTM2L	128434	broad.mit.edu	37	20	36553079	36553081	+	Intron	DEL	CAG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36553079_36553081delCAG	uc002xhk.3	+							NM_080607	NP_542174	Q96N03	VTM2L_HUMAN	V-set and transmembrane domain containing 2 like											ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)				TCATCATAATcagcagcagcagc	0.320													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	37263529	37263530	+	IGR	INS	-	T	T	rs139285526		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37263529_37263530insT								ADIG (46425 upstream) : SLC32A1 (89575 downstream)																							gtctttctttcttttttttttt	0.267													11	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	38051398	38051399	+	IGR	INS	-	T	T	rs139722464	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38051398_38051399insT								LOC339568 (198007 upstream) : None (None downstream)																							TGTAGACCACATTTTTTTTTAA	0.342													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	39430804	39430805	+	IGR	INS	-	G	G	rs139467973	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39430804_39430805insG								MAFB (112928 upstream) : TOP1 (226657 downstream)																							ttcaaatccaatctatccacct	0.119													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	39610547	39610548	+	Intron	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39610547_39610548delGT	uc002xjj.2	+						uc002xjk.2_Intron					Homo sapiens cDNA FLJ10978 fis, clone PLACE1001484.																		TGGCTGAAAGGTGTGTGTGTGA	0.366													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	41833306	41833306	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41833306delT								PTPRT (14749 upstream) : SFRS6 (253198 downstream)																							AATTGCTCTCTTATCATGTAA	0.269													4	2	---	---	---	---	
JPH2	57158	broad.mit.edu	37	20	42811488	42811488	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42811488delA	uc002xli.1	-						JPH2_uc002xlj.2_Intron	NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1						calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			aacttgctgtaaagcagttcc	0.080													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	43733537	43733537	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43733537delT								KCNS1 (3784 upstream) : WFDC5 (4556 downstream)																							aagagtttacttttttttttt	0.075													3	5	---	---	---	---	
SYS1-DBNDD2	767557	broad.mit.edu	37	20	44018734	44018735	+	Intron	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44018734_44018735insT	uc002xnx.2	+							NM_001048225	NP_001041690			SCF apoptosis response protein 1 isoform a												0						atggtgaagtgttttttttaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	44075806	44075806	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44075806delG								PIGT (20922 upstream) : WFDC2 (22588 downstream)																							AGAAGTCTGTGGCTGAATGAA	0.274													4	2	---	---	---	---	
ZMYND8	23613	broad.mit.edu	37	20	45929900	45929902	+	Intron	DEL	TTT	-	-	rs74178720		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45929900_45929902delTTT	uc002xta.1	-						ZMYND8_uc010ghr.1_Intron|ZMYND8_uc002xst.1_Intron|ZMYND8_uc002xsu.1_Intron|ZMYND8_uc002xsv.1_Intron|ZMYND8_uc002xsw.1_Intron|ZMYND8_uc002xsx.1_Intron|ZMYND8_uc002xsy.1_Intron|ZMYND8_uc002xsz.1_Intron|ZMYND8_uc010zxy.1_Intron|ZMYND8_uc002xtb.1_Intron|ZMYND8_uc002xss.2_Intron|ZMYND8_uc010zxz.1_Intron|ZMYND8_uc002xtc.1_Intron|ZMYND8_uc002xtd.1_Intron|ZMYND8_uc002xte.1_Intron|ZMYND8_uc010zya.1_Intron|ZMYND8_uc002xtf.1_Intron|ZMYND8_uc002xtg.2_Intron|ZMYND8_uc010ghs.1_Intron|ZMYND8_uc002xth.2_Intron	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b								protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			TGCATAAttcttttttttttttt	0.158													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	46593670	46593670	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:46593670delT								SULF2 (178310 upstream) : LOC284749 (394984 downstream)																							TGAAAATCACtttttttttga	0.149													4	2	---	---	---	---	
PREX1	57580	broad.mit.edu	37	20	47360528	47360530	+	Intron	DEL	TGA	-	-	rs67049182		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47360528_47360530delTGA	uc002xtw.1	-							NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,						actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			AGTGAGTTAGtgatgatgatgat	0.325													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	48875029	48875030	+	IGR	INS	-	TA	TA	rs11474325		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48875029_48875030insTA								CEBPB (65817 upstream) : PTPN1 (251861 downstream)																							gtgtgtgtctgtgtgtgtgtgt	0.450													3	3	---	---	---	---	
NFATC2	4773	broad.mit.edu	37	20	50019017	50019017	+	Intron	DEL	A	-	-	rs33913863		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50019017delA	uc002xwd.2	-						NFATC2_uc002xwc.2_Intron|NFATC2_uc010zyv.1_Intron|NFATC2_uc010zyw.1_Intron|NFATC2_uc010zyx.1_Intron|NFATC2_uc010zyy.1_Intron|NFATC2_uc010zyz.1_Intron|NFATC2_uc002xwe.2_Intron	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,						B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					CTGCCTTTGGAAAAAAAAAAA	0.418													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	51527854	51527854	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51527854delT								ZFP64 (719330 upstream) : TSHZ2 (61023 downstream)																							TGACCATACCTTTTTTTTTCA	0.328													4	2	---	---	---	---	
TSHZ2	128553	broad.mit.edu	37	20	51945289	51945289	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51945289delT	uc002xwo.2	+							NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2						multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			atttttatcattaagatattt	0.060													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	52764377	52764378	+	IGR	INS	-	T	T	rs113590997		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52764377_52764378insT								BCAS1 (77073 upstream) : CYP24A1 (5610 downstream)																							gcactcagttcttttttttttc	0.000													4	2	---	---	---	---	
CYP24A1	1591	broad.mit.edu	37	20	52792395	52792395	+	5'Flank	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52792395delG	uc002xwv.2	-						CYP24A1_uc002xww.2_5'Flank	NM_000782	NP_000773	Q07973	CP24A_HUMAN	cytochrome P450 family 24 subfamily A						hormone biosynthetic process|osteoblast differentiation|vitamin D catabolic process|vitamin D receptor signaling pathway|xenobiotic metabolic process	mitochondrial inner membrane	1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity|electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		STAD - Stomach adenocarcinoma(23;0.206)		Calcidiol(DB00146)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	AGAGGAAAGTGGGGGGGATCA	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	53439795	53439795	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53439795delT								DOK5 (172086 upstream) : None (None downstream)																							TGCACATGCCTTTTTTTTTAT	0.403													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	53939680	53939680	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53939680delT								DOK5 (671971 upstream) : CBLN4 (632817 downstream)																							TAGTATAGGATTTTTTTTTGG	0.308													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	54133079	54133079	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54133079delG								DOK5 (865370 upstream) : CBLN4 (439418 downstream)																							ggaagcccctggggggtgaat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	54713323	54713323	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54713323delT								CBLN4 (133311 upstream) : MC3R (110465 downstream)																							ttcatatctatttttggtaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	55521719	55521719	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55521719delG								TFAP2C (307383 upstream) : BMP7 (222090 downstream)																							ggggaggggtgggggagaccg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	56767592	56767592	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56767592delT								C20orf85 (31411 upstream) : PPP4R1L (38597 downstream)																							tgagtgaaggttttagcTCCA	0.219											OREG0026072	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	57152382	57152382	+	Intron	DEL	A	-	-	rs6128375	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57152382delA	uc002xzg.1	+											Homo sapiens cDNA FLJ30075 fis, clone BGGI11000285.																		gtccaggaggactgatcacgg	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	57837540	57837540	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57837540delC								ZNF831 (3375 upstream) : EDN3 (37959 downstream)																							GCAACTATTTCCCATTACTTA	0.184													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	59564523	59564524	+	IGR	DEL	GT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59564523_59564524delGT								MIR646 (680898 upstream) : CDH4 (263035 downstream)																							cttgttacaggtgtgtgtgtgt	0.040													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	59673050	59673050	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59673050delT								MIR646 (789425 upstream) : CDH4 (154509 downstream)																							CTTTCTTTCCTTTTTTTTCCA	0.353													4	3	---	---	---	---	
CDH4	1002	broad.mit.edu	37	20	60450994	60450995	+	Intron	DEL	AC	-	-	rs113694188		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60450994_60450995delAC	uc002ybn.1	+						CDH4_uc002ybp.1_Intron	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein						adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			CGCTCCCCCAacacacacacac	0.564													1	5	---	---	---	---	
STMN3	50861	broad.mit.edu	37	20	62274627	62274627	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62274627delT	uc002yfr.1	-						STMN3_uc011abb.1_Intron	NM_015894	NP_056978	Q9NZ72	STMN3_HUMAN	SCG10-like-protein						cytoplasmic microtubule organization|intracellular signal transduction|negative regulation of Rac protein signal transduction|neuron projection development|regulation of cytoskeleton organization|regulation of Rac GTPase activity	cytoplasm	protein domain specific binding				0	all_cancers(38;2.31e-11)|all_epithelial(29;7.76e-13)		Epithelial(9;1.9e-09)|all cancers(9;1.22e-08)|BRCA - Breast invasive adenocarcinoma(10;8.86e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.00559)			CATCCCtttctttttttgttc	0.318													4	2	---	---	---	---	
MYT1	4661	broad.mit.edu	37	20	62805052	62805054	+	Intron	DEL	TTG	-	-	rs446386		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62805052_62805054delTTG	uc002yii.2	+						MYT1_uc002yih.2_Intron	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1						cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					GCATCTTTCCTTGTAGTTGTGTC	0.532													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	62944065	62944065	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62944065delT								PCMTD2 (36487 upstream) : None (None downstream)																							ttttgttttgttttttttccc	0.114													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	9590549	9590550	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:9590549_9590550insA								None (None upstream) : None (None downstream)																							CCCTCaaatttaaaaaattata	0.322													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	9879512	9879512	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:9879512delT								None (None upstream) : None (None downstream)																							ggcgcggttgttttttttttt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10557755	10557756	+	Intron	DEL	AT	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10557755_10557756delAT	uc011abv.1	-											Homo sapiens cDNA, FLJ18615.																		ttaaacattaatatatgtctaa	0.000													4	3	---	---	---	---	
TPTE	7179	broad.mit.edu	37	21	10919624	10919625	+	Intron	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10919624_10919625delAC	uc002yip.1	-						TPTE_uc002yis.1_Intron|TPTE_uc002yiq.1_Intron|TPTE_uc002yir.1_Intron|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CACAGAAAAGacacacacacac	0.257													4	2	---	---	---	---	
BAGE2	85319	broad.mit.edu	37	21	11021669	11021672	+	Intron	DEL	GTCA	-	-	rs142304422		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11021669_11021672delGTCA	uc002yit.1	-						TPTE_uc002yis.1_Intron	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		agatatatcggtcaaaatggaagg	0.025													7	4	---	---	---	---	
BAGE2	85319	broad.mit.edu	37	21	11072388	11072389	+	Intron	INS	-	T	T	rs140345115		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11072388_11072389insT	uc002yit.1	-						BAGE_uc002yix.2_Intron	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		tggttcacgccgtgattccagc	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	14345230	14345230	+	IGR	DEL	T	-	-	rs112811966		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:14345230delT								None (None upstream) : C21orf99 (65257 downstream)																							tcttttcaactttaggcctca	0.000													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	14406989	14406989	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:14406989delA								None (None upstream) : C21orf99 (3498 downstream)																							tgatgaatggaaaaaaaaaaa	0.000													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	17392413	17392413	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:17392413delT								USP25 (140036 upstream) : C21orf34 (50429 downstream)																							CATTCTATGATTTTTTTTAAA	0.254													4	2	---	---	---	---	
CXADR	1525	broad.mit.edu	37	21	18928787	18928787	+	Intron	DEL	A	-	-	rs3838629		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:18928787delA	uc002yki.2	+						CXADR_uc002ykh.1_Intron|CXADR_uc010gld.1_Intron|CXADR_uc010gle.1_Intron|CXADR_uc002ykj.1_Intron	NM_001338	NP_001329	P78310	CXAR_HUMAN	coxsackie virus and adenovirus receptor						blood coagulation|cell adhesion|interspecies interaction between organisms|leukocyte migration|regulation of immune response	adherens junction|basolateral plasma membrane|extracellular region|integral to plasma membrane|nucleus|tight junction	receptor activity			ovary(1)	1				Epithelial(23;0.000206)|all cancers(11;0.000302)|OV - Ovarian serous cystadenocarcinoma(11;0.0194)|Lung(58;0.0233)|COAD - Colon adenocarcinoma(22;0.0389)|Colorectal(24;0.0483)|LUSC - Lung squamous cell carcinoma(23;0.0782)		TATATGGGAGAAAATGGATAT	0.348													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	20461660	20461661	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:20461660_20461661insT								TMPRSS15 (685690 upstream) : None (None downstream)																							ATGTTAGAAGATTTTTTTTTGC	0.243													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	21799706	21799706	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:21799706delA								None (None upstream) : C21orf131 (315208 downstream)																							atttattaagaaaaaaaaatg	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	25476737	25476737	+	IGR	DEL	A	-	-	rs68185552		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:25476737delA								None (None upstream) : None (None downstream)																							CATTAACAGGAAAAAAAAAAC	0.328													2	4	---	---	---	---	
APP	351	broad.mit.edu	37	21	27322345	27322345	+	Intron	DEL	C	-	-	rs10706416		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:27322345delC	uc002ylz.2	-						APP_uc011acg.1_Intron|APP_uc010glk.2_Intron|APP_uc002yma.2_Intron|APP_uc011ach.1_Intron|APP_uc002ymb.2_Intron|APP_uc010glj.2_Intron|APP_uc011aci.1_Intron	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor						adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				aatgcaagaacagcccacttc	0.050													4	2	---	---	---	---	
NCRNA00113	54088	broad.mit.edu	37	21	29120051	29120052	+	Intron	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:29120051_29120052delTG	uc011acl.1	+							NR_024357				Homo sapiens non-protein coding RNA 113 (NCRNA00113), non-coding RNA.												0						GTAAAAATTTtgtgtgtgtgtg	0.238													4	2	---	---	---	---	
USP16	10600	broad.mit.edu	37	21	30417493	30417493	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:30417493delT	uc002ymy.2	+						USP16_uc002ymx.2_Intron|USP16_uc002ymw.2_Intron|USP16_uc011acm.1_Intron|USP16_uc011acn.1_Intron|USP16_uc011aco.1_Intron	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a						cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						tcttttcttattttttattca	0.154													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	31421405	31421405	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:31421405delT								GRIK1 (109123 upstream) : CLDN17 (116858 downstream)																							cagcaccccctttctggtaac	0.104													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	32949381	32949381	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:32949381delC								TIAM1 (17091 upstream) : SOD1 (82554 downstream)																							AACAAACAAACAAAAAAAACA	0.249													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	34468511	34468511	+	IGR	DEL	T	-	-	rs112708519		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34468511delT								OLIG1 (23784 upstream) : C21orf54 (69266 downstream)																							tctttttttctttttttttct	0.234													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	35363066	35363066	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:35363066delA								ATP5O (74908 upstream) : MRPS6 (82757 downstream)																							atcaaaaaggaaaaaaaaaaG	0.219													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	35424666	35424667	+	IGR	DEL	AC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:35424666_35424667delAC								ATP5O (136508 upstream) : MRPS6 (21156 downstream)																							agaaagagaGACACACAGTTGT	0.248													4	2	---	---	---	---	
SLC5A3	6526	broad.mit.edu	37	21	35448127	35448127	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:35448127delA	uc002yto.2	+						MRPS6_uc002ytp.2_Intron	NM_006933	NP_008864	P53794	SC5A3_HUMAN	solute carrier family 5 (inositol transporters),							integral to plasma membrane	myo-inositol:sodium symporter activity			ovary(2)	2						ATAGGATTCTAAAATAGGATG	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	40712708	40712708	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:40712708delC								BRWD1 (27152 upstream) : HMGN1 (1539 downstream)																							TCTACCTATACTTCAGAGTTA	0.478													4	2	---	---	---	---	
IGSF5	150084	broad.mit.edu	37	21	41140193	41140194	+	Intron	INS	-	TC	TC	rs145308936	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:41140193_41140194insTC	uc002yyo.2	+							NM_001080444	NP_001073913	Q9NSI5	IGSF5_HUMAN	immunoglobulin superfamily 5 like							integral to membrane|tight junction					0		Prostate(19;5.35e-06)				GAGCAACAGGGTCTCCCTCAAG	0.396													2	4	---	---	---	---	
DSCAM	1826	broad.mit.edu	37	21	41873471	41873471	+	Intron	DEL	C	-	-	rs75239155		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:41873471delC	uc002yyq.1	-						DSCAM_uc002yyr.1_Intron	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform						cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CCATGAGCTGCCTCTTTTCTC	0.244													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	42287087	42287088	+	IGR	INS	-	AG	AG	rs142377388	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:42287087_42287088insAG								DSCAM (68048 upstream) : C21orf130 (226339 downstream)																							GCCAAAAATGTAGTCAGCTGCA	0.277													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	44033284	44033284	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44033284delA	uc002zbk.1	-											Homo sapiens, clone IMAGE:5189363, mRNA.																		gtaatttatgaaaaaaagcag	0.129													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	47012016	47012016	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47012016delA								SLC19A1 (47691 upstream) : PCBP3 (51667 downstream)																							acccacacacaaaaaaacaca	0.224													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	16117749	16117750	+	IGR	INS	-	G	G			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16117749_16117750insG								None (None upstream) : POTEH (138582 downstream)																							AAAATATTTTTTTTTCTGTATA	0.257													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	16956325	16956327	+	IGR	DEL	AAC	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16956325_16956327delAAC								OR11H1 (506521 upstream) : CCT8L2 (115321 downstream)																							tcatatacttaacaaaattttat	0.059													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	17374203	17374203	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17374203delA								HSFYL1 (63978 upstream) : GAB4 (68626 downstream)																							aatagttaccaaaaaaaaaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	18887538	18887538	+	IGR	DEL	T	-	-	rs139562572		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18887538delT								GGT3P (94546 upstream) : DGCR6 (6003 downstream)																							ctcttagtgattttttttttt	0.000													5	3	---	---	---	---	
TXNRD2	10587	broad.mit.edu	37	22	19899771	19899771	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19899771delA	uc011ahc.1	-						TXNRD2_uc002zql.1_Intron|TXNRD2_uc002zqm.1_Intron|TXNRD2_uc002zqn.1_Intron|TXNRD2_uc002zqo.1_Intron|TXNRD2_uc002zqp.1_Intron|TXNRD2_uc002zqr.1_Intron|TXNRD2_uc010grv.1_Intron|TXNRD2_uc002zqj.1_Intron|TXNRD2_uc002zqs.2_Intron	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor						cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					TCCAACTGGCAAAAAAAAATA	0.493													2	4	---	---	---	---	
MED15	51586	broad.mit.edu	37	22	20923923	20923925	+	Intron	DEL	GAG	-	-	rs72200590		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:20923923_20923925delGAG	uc002zsp.2	+						MED15_uc002zsq.2_Intron|MED15_uc010gso.2_Intron|MED15_uc002zsr.2_Intron|MED15_uc011ahs.1_Intron|MED15_uc002zss.2_Intron|MED15_uc011ahu.1_Intron	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			GAAGCTGCCTGAGGAGGGAATCT	0.552													3	3	---	---	---	---	
YPEL1	29799	broad.mit.edu	37	22	22073072	22073073	+	Intron	INS	-	AC	AC	rs140115533	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22073072_22073073insAC	uc002zvl.2	-						YPEL1_uc002zvm.2_Intron	NM_013313	NP_037445	O60688	YPEL1_HUMAN	yippee-like 1							nucleus					0	Colorectal(54;0.105)					CACGTGTAAATacacacacaca	0.272													8	7	---	---	---	---	
YPEL1	29799	broad.mit.edu	37	22	22085290	22085290	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22085290delT	uc002zvl.2	-						YPEL1_uc002zvm.2_Intron	NM_013313	NP_037445	O60688	YPEL1_HUMAN	yippee-like 1							nucleus					0	Colorectal(54;0.105)					CTGTACTACATTTTTTTTTCT	0.438													4	2	---	---	---	---	
LOC96610	96610	broad.mit.edu	37	22	22571508	22571508	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22571508delT	uc011aim.1	+											Parts of antibodies, mostly variable regions.												0						tacctttgcatttttttgatc	0.154													4	2	---	---	---	---	
LOC96610	96610	broad.mit.edu	37	22	22655485	22655485	+	Intron	DEL	A	-	-	rs112903165		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22655485delA	uc011aim.1	+						LOC96610_uc011aiq.1_Intron|LOC96610_uc011aip.1_Intron|LOC96610_uc010gto.2_Intron					Parts of antibodies, mostly variable regions.												0						ttgcttgttgaagcattttta	0.005													2	4	---	---	---	---	
SGSM1	129049	broad.mit.edu	37	22	25290845	25290846	+	Intron	INS	-	A	A	rs35536458		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:25290845_25290846insA	uc003abg.2	+						SGSM1_uc003abh.2_Intron|SGSM1_uc010guu.1_Intron|SGSM1_uc003abj.2_Intron|SGSM1_uc003abi.1_Intron	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1							Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						GGGATCATGGGAAAAAAAAAAG	0.287													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	25892589	25892589	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:25892589delA	uc003abv.2	+											Homo sapiens cDNA clone IMAGE:3542716, partial cds.																		GAActtacacaagagtcagcc	0.179													4	2	---	---	---	---	
C22orf30	253143	broad.mit.edu	37	22	32084411	32084411	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32084411delA	uc003alp.3	-						C22orf30_uc003alo.1_Intron|C22orf30_uc010gwj.1_Intron	NM_173566	NP_775837	Q5THK1	PR14L_HUMAN	hypothetical protein LOC253143												0						aggcTAGATTAAAAAAAAAAA	0.154													5	6	---	---	---	---	
LARGE	9215	broad.mit.edu	37	22	33958931	33958931	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:33958931delT	uc003and.3	-						LARGE_uc011amd.1_Intron|LARGE_uc003ane.3_Intron|LARGE_uc010gwp.2_Intron|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Intron|LARGE_uc010gwq.1_Intron	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase						glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				gagagagctcttgagaacagc	0.114													4	2	---	---	---	---	
LARGE	9215	broad.mit.edu	37	22	34073743	34073744	+	Intron	INS	-	G	G	rs149761632	by1000genomes	TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:34073743_34073744insG	uc003and.3	-						LARGE_uc003ane.3_Intron|LARGE_uc010gwp.2_Intron|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Intron	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase						glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				CAGCCTCTCCTGTCCAGACCAA	0.505													1	5	---	---	---	---	
CACNG2	10369	broad.mit.edu	37	22	37050745	37050745	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37050745delA	uc003aps.1	-							NM_006078	NP_006069	Q9Y698	CCG2_HUMAN	voltage-dependent calcium channel gamma-2						membrane depolarization|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0						TCAGACGCATAAAAAAAAGTT	0.368													4	2	---	---	---	---	
MFNG	4242	broad.mit.edu	37	22	37876043	37876043	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37876043delA	uc003ass.1	-						MFNG_uc011ani.1_Intron|MFNG_uc011anj.1_Intron|CARD10_uc003ast.1_Intron	NM_002405	NP_002396	O00587	MFNG_HUMAN	O-fucosylpeptide						pattern specification process	extracellular space|integral to Golgi membrane	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity			lung(1)	1	Melanoma(58;0.0574)					actctgtctcaaaaaaaaaag	0.030													4	4	---	---	---	---	
CACNA1I	8911	broad.mit.edu	37	22	40032090	40032091	+	Intron	DEL	TG	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40032090_40032091delTG	uc003ayc.2	+						CACNA1I_uc003ayd.2_Intron|CACNA1I_uc003aye.2_Intron|CACNA1I_uc003ayf.2_Intron	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,						axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	aactaattgttgaaggaataag	0.248													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	44609640	44609642	+	IGR	DEL	CAT	-	-	rs140213077		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44609640_44609642delCAT								PARVG (6606 upstream) : KIAA1644 (29915 downstream)																							tcatcacctccatcatcatcatc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	17277278	17277278	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:17277278delC								REPS2 (105875 upstream) : NHS (116265 downstream)																							tgggatttatcccagggatgc	0.000													4	2	---	---	---	---	
IL1RAPL1	11141	broad.mit.edu	37	X	29127075	29127075	+	Intron	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:29127075delT	uc004dby.2	+							NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1						innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						GTAAGACATCTTTTTTTTTCA	0.279													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	39537622	39537622	+	IGR	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:39537622delC								MID1IP1 (871841 upstream) : BCOR (372879 downstream)																							CTCCCTGTTTCCCCAGCACCC	0.502													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	42680091	42680091	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:42680091delT								PPP1R2P9 (42605 upstream) : MAOA (835318 downstream)																							AATCAAtttgttttttttttt	0.129													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	48164542	48164542	+	Intron	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48164542delA	uc010nib.1	-							NM_174962	NP_777622			synovial sarcoma, X breakpoint 9																		AGCAGCCTTGAGTCTTTGGGA	0.507													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	54644713	54644713	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54644713delT								GNL3L (52740 upstream) : ITIH5L (130619 downstream)																							atcatcttcatccccctagtc	0.000													4	2	---	---	---	---	
HDAC8	55869	broad.mit.edu	37	X	71699384	71699384	+	Intron	DEL	C	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:71699384delC	uc004eau.2	-						HDAC8_uc011mqe.1_Intron|HDAC8_uc011mqf.1_Intron|HDAC8_uc011mqg.1_Intron|HDAC8_uc011mqh.1_Intron|HDAC8_uc010nlk.1_Intron|HDAC8_uc004eav.2_Intron|HDAC8_uc004eaw.2_Intron	NM_018486	NP_060956	Q9BY41	HDAC8_HUMAN	histone deacetylase 8						chromatin assembly or disassembly|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nuclear chromosome	histone deacetylase activity (H3-K16 specific)|metal ion binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding				0	Renal(35;0.156)				Vorinostat(DB02546)	GTCACTTGCTCCAGGAGGCAG	0.458													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	78444324	78444324	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:78444324delT								GPR174 (16598 upstream) : ITM2A (171559 downstream)																							agctcttacattaaggtcttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	84773124	84773124	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:84773124delA								POF1B (138376 upstream) : MIR1321 (317661 downstream)																							ATAGCACAATAAAAAAAAAAC	0.393													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	116062126	116062126	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:116062126delA								CXorf61 (467989 upstream) : KLHL13 (969651 downstream)																							taacccttttaaaaaaaacac	0.050													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	117009183	117009184	+	IGR	INS	-	A	A			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117009183_117009184insA								None (None upstream) : KLHL13 (22593 downstream)																							tacatatggctagccagttttc	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	122105261	122105261	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:122105261delT								None (None upstream) : GRIA3 (212835 downstream)																							ATATGCAACCTTTTTTTTTTT	0.358													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	122285052	122285052	+	IGR	DEL	G	-	-	rs142496389		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:122285052delG								None (None upstream) : GRIA3 (33044 downstream)																							gtggttcctcgaaaaattaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	148478362	148478362	+	IGR	DEL	T	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:148478362delT								AFF2 (396170 upstream) : IDS (81935 downstream)																							atagagcaactttatggtaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	150192236	150192236	+	IGR	DEL	A	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:150192236delA								HMGB3 (32990 upstream) : GPR50 (152823 downstream)																							ATGTGCCACTAAACCTAGTTT	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13285655	13285656	+	IGR	INS	-	GA	GA	rs113499634		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13285655_13285656insGA								None (None upstream) : None (None downstream)																							caataccacgggggggtgtata	0.000													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	58969443	58969452	+	IGR	DEL	ACACACACAC	-	-	rs75095670		TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:58969443_58969452delACACACACAC								None (None upstream) : None (None downstream)																							acgcacagatacacacacacacacacacac	0.252													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	59007289	59007289	+	IGR	DEL	G	-	-			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:59007289delG								None (None upstream) : None (None downstream)																							CATAATTTCTGGTAACAATTT	0.159													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	59013031	59013032	+	IGR	INS	-	T	T			TCGA-CW-5591-01A-01D-1534-10	TCGA-CW-5591-11A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:59013031_59013032insT								None (None upstream) : None (None downstream)																							aaaaaaaaTTCTTACCTCCTGG	0.203													6	3	---	---	---	---	
