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
SLC35E2B	728661	broad.mit.edu	37	1	1597429	1597429	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1597429G>A	uc001ahf.3	-	10	1931	c.1010C>T	c.(1009-1011)TCC>TTC	p.S337F	CDK11B_uc001ags.1_Intron|CDK11B_uc001agt.1_Intron|CDK11B_uc001aha.1_Intron|CDK11B_uc001agw.1_Intron|CDK11B_uc001agv.1_Intron|CDK11B_uc001agy.1_Intron|CDK11B_uc001agx.1_Intron|CDK11B_uc001agz.1_Intron|SLC35E2B_uc009vkl.1_Intron|SLC35E2B_uc001ahe.3_Silent_p.V119V|SLC35E2B_uc001ahg.3_Missense_Mutation_p.S337F|SLC35E2B_uc001ahh.3_Missense_Mutation_p.S337F	NM_001110781	NP_001104251	P0CK96	S352B_HUMAN	similar to solute carrier family 35, member E2	337	Helical; (Potential).					integral to membrane					0						GAGCCAGATGGACAAGGCATG	0.627													3	21	---	---	---	---	PASS
MST1P9	11223	broad.mit.edu	37	1	17084021	17084021	+	Missense_Mutation	SNP	C	G	G	rs2446543		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17084021C>G	uc010ock.1	-	14	1900	c.1900G>C	c.(1900-1902)GCC>CCC	p.A634P	CROCC_uc009voy.1_Intron|MST1P9_uc001azp.3_Missense_Mutation_p.A234P	NR_002729				SubName: Full=Hepatocyte growth factor-like protein homolog;												0						ACCTCACAGGCCCCCACAGGG	0.572													5	32	---	---	---	---	PASS
ZSWIM5	57643	broad.mit.edu	37	1	45553638	45553638	+	Silent	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45553638C>T	uc001cnd.2	-	2	1095	c.867G>A	c.(865-867)ACG>ACA	p.T289T		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	289							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TGTGGTGTGCCGTGATTAAAT	0.408													5	646	---	---	---	---	PASS
TYW3	127253	broad.mit.edu	37	1	75229696	75229696	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:75229696A>G	uc001dgn.2	+	6	768	c.679A>G	c.(679-681)ACA>GCA	p.T227A	TYW3_uc010oqw.1_Missense_Mutation_p.T194A|TYW3_uc010oqx.1_Missense_Mutation_p.T143A|TYW3_uc010oqy.1_RNA	NM_138467	NP_612476	Q6IPR3	TYW3_HUMAN	tRNA-yW synthesizing protein 3 homolog isoform	227					tRNA processing		methyltransferase activity			ovary(2)	2						CCCAGAAAAAACACGTGCCCA	0.338													7	585	---	---	---	---	PASS
COL11A1	1301	broad.mit.edu	37	1	103352502	103352502	+	Silent	SNP	C	T	T	rs3753842		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:103352502C>T	uc001dul.2	-	63	5037	c.4719G>A	c.(4717-4719)TCG>TCA	p.S1573S	COL11A1_uc001duk.2_Silent_p.S769S|COL11A1_uc001dum.2_Silent_p.S1585S|COL11A1_uc001dun.2_Silent_p.S1534S|COL11A1_uc009weh.2_Silent_p.S1457S	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1573					collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCATTCCATCCGAGTAATCAA	0.403													5	583	---	---	---	---	PASS
BCL2L15	440603	broad.mit.edu	37	1	114423724	114423724	+	3'UTR	SNP	C	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114423724C>G	uc001edw.2	-	4					uc001edv.1_Intron|BCL2L15_uc001edx.2_3'UTR|BCL2L15_uc001edy.2_RNA	NM_001010922	NP_001010922	Q5TBC7	B2L15_HUMAN	pro-apoptotic Bcl-2 protein						apoptosis					ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.95e-08)|all_epithelial(167;9.95e-08)|all_lung(203;1.31e-05)|Lung NSC(69;2.46e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GATGTTCAGTCTCGTGAATAG	0.378													11	305	---	---	---	---	PASS
NBPF14	25832	broad.mit.edu	37	1	148004465	148004465	+	3'UTR	SNP	T	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:148004465T>A	uc001eqq.2	-	22					LOC200030_uc010ozz.1_Intron|LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqf.2_Intron|LOC200030_uc001eqg.2_Intron|FLJ39739_uc001eqo.1_Intron|NBPF14_uc010pab.1_3'UTR|NBPF14_uc010pac.1_3'UTR	NM_015383	NP_056198	Q5TI25	NBPFE_HUMAN	hypothetical protein LOC25832							cytoplasm				ovary(1)	1	all_hematologic(923;0.032)					GGCTTCCAAATGGAACTGTAC	0.488													4	15	---	---	---	---	PASS
KPRP	448834	broad.mit.edu	37	1	152733814	152733814	+	3'UTR	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152733814G>T	uc001fal.1	+	2						NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein							cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAGGAAAGGTGACTGAGATAA	0.458													6	38	---	---	---	---	PASS
LENEP	55891	broad.mit.edu	37	1	154966078	154966078	+	5'UTR	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154966078G>A	uc001fgi.2	+	1						NM_018655	NP_061125	Q9Y5L5	LENEP_HUMAN	lens epithelial protein						multicellular organismal development		DNA binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CGGAACTGTTGCCCACATGCA	0.592													10	30	---	---	---	---	PASS
TDRD5	163589	broad.mit.edu	37	1	179564824	179564824	+	Silent	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179564824A>G	uc001gnf.1	+	4	952	c.702A>G	c.(700-702)GTA>GTG	p.V234V	TDRD5_uc010pnp.1_Silent_p.V234V	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	234					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						GCTTTCCGGTAGCAAAGCCAT	0.383													6	294	---	---	---	---	PASS
RPS6KC1	26750	broad.mit.edu	37	1	213415602	213415602	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213415602G>A	uc010ptr.1	+	11	2942	c.2783G>A	c.(2782-2784)CGC>CAC	p.R928H	RPS6KC1_uc001hkd.2_Missense_Mutation_p.R916H|RPS6KC1_uc010pts.1_Missense_Mutation_p.R716H|RPS6KC1_uc010ptt.1_Missense_Mutation_p.R716H|RPS6KC1_uc010ptu.1_Missense_Mutation_p.R747H|RPS6KC1_uc010ptv.1_Missense_Mutation_p.R463H|RPS6KC1_uc001hke.2_Missense_Mutation_p.R747H	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	928	Protein kinase 2.				cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		ATTGTGTGCCGCGATTTGAAC	0.433													5	136	---	---	---	---	PASS
PTPN14	5784	broad.mit.edu	37	1	214656676	214656676	+	Intron	SNP	A	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:214656676A>C	uc001hkk.1	-						PTPN14_uc010pty.1_Intron|uc010ptz.1_RNA	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type						lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		GGGCGGTAGAACTTGGAGAGC	0.522													25	224	---	---	---	---	PASS
NUP133	55746	broad.mit.edu	37	1	229634003	229634003	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229634003T>C	uc001htn.2	-	6	791	c.699A>G	c.(697-699)ATA>ATG	p.I233M		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	233					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				AGCTCTCAGGTATCAACCGAA	0.393													5	212	---	---	---	---	PASS
TMEM17	200728	broad.mit.edu	37	2	62728554	62728554	+	Silent	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62728554G>T	uc002sbt.2	-	4	727	c.387C>A	c.(385-387)CTC>CTA	p.L129L	TMEM17_uc002sbu.2_3'UTR|TMEM17_uc002sbv.1_3'UTR	NM_198276	NP_938017	Q86X19	TMM17_HUMAN	transmembrane protein 17	129	Helical; (Potential).					integral to membrane					0	Lung NSC(7;0.0274)|all_lung(7;0.0568)		LUSC - Lung squamous cell carcinoma(7;1.31e-05)|Epithelial(17;0.169)			CTTCATTAAAGAGCAAGAAAA	0.378													47	201	---	---	---	---	PASS
ANKRD36B	57730	broad.mit.edu	37	2	98196997	98196997	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98196997C>A	uc010yvc.1	-	4	765	c.485G>T	c.(484-486)CGA>CTA	p.R162L	ANKRD36B_uc010yve.1_RNA|ANKRD36B_uc010fif.2_Intron	NM_025190	NP_079466	Q8N2N9	AN36B_HUMAN	ankyrin repeat domain 36B	162	ANK 5.										0						CACTTTTCTTCGACTCACAGC	0.299													7	665	---	---	---	---	PASS
CNGA3	1261	broad.mit.edu	37	2	98999851	98999851	+	Silent	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98999851C>T	uc002syt.2	+	5	813	c.396C>T	c.(394-396)AGC>AGT	p.S132S	CNGA3_uc002syu.2_Intron|CNGA3_uc010fij.2_Silent_p.S136S	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	132					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						CTTCCCGCAGCGCCTGGCCCC	0.582													5	149	---	---	---	---	PASS
DDX18	8886	broad.mit.edu	37	2	118586939	118586939	+	Silent	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118586939C>T	uc002tlh.1	+	13	1866	c.1767C>T	c.(1765-1767)GCC>GCT	p.A589A		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	589							ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						ACATACGAGCCTATGATTCCC	0.368													5	436	---	---	---	---	PASS
INSIG2	51141	broad.mit.edu	37	2	118860800	118860800	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118860800T>C	uc002tlk.2	+	3	478	c.272T>C	c.(271-273)ATT>ACT	p.I91T	INSIG2_uc010yye.1_5'UTR|INSIG2_uc002tll.2_5'UTR	NM_016133	NP_057217	Q9Y5U4	INSI2_HUMAN	insulin induced protein 2	91	Helical; (Potential).				ER-nuclear sterol response pathway	SREBP-SCAP-Insig complex				ovary(1)|central_nervous_system(1)	2						TACCCCTGCATTGACAGACAT	0.383													7	525	---	---	---	---	PASS
GALNT13	114805	broad.mit.edu	37	2	155295127	155295127	+	Silent	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155295127A>G	uc002tyr.3	+	12	1986	c.1419A>G	c.(1417-1419)AAA>AAG	p.K473K	GALNT13_uc002tyt.3_Silent_p.K473K|GALNT13_uc010fod.2_Intron|uc002tyu.1_Intron	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	473	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						CTGCTGACAAAGAAATCCGAA	0.338													22	571	---	---	---	---	PASS
NCKAP1	10787	broad.mit.edu	37	2	183817584	183817584	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:183817584A>G	uc002upc.2	-	22	2842	c.2440T>C	c.(2440-2442)TTT>CTT	p.F814L	NCKAP1_uc002upb.2_Missense_Mutation_p.F820L	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	814					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			AAGTTCACAAACGCTTTCATT	0.348													7	400	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	190788000	190788000	+	5'UTR	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190788000C>T	uc002uro.2	+	1										SubName: Full=cDNA FLJ54127, highly similar to Heterogeneous nuclear ribonucleoproteins C;																		GACTCAGAATCGAATCTCTTC	0.527													8	75	---	---	---	---	PASS
UNC80	285175	broad.mit.edu	37	2	210696256	210696256	+	Missense_Mutation	SNP	A	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210696256A>C	uc010zjc.1	+	16	2796	c.2716A>C	c.(2716-2718)AAA>CAA	p.K906Q	UNC80_uc002vdk.2_Missense_Mutation_p.K67Q	NM_032504	NP_115893	Q8N2C7	UNC80_HUMAN	chromosome 2 open reading frame 21 isoform 1	906						integral to membrane					0						CGCCATGTTTAAATCCCTCAT	0.493													5	254	---	---	---	---	PASS
VHL	7428	broad.mit.edu	37	3	10188254	10188254	+	Missense_Mutation	SNP	A	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10188254A>C	uc003bvc.2	+	2	610	c.397A>C	c.(397-399)ACT>CCT	p.T133P	VHL_uc003bvd.2_Intron	NM_000551	NP_000542	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor isoform 1	133	Involved in binding to CCT complex.				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.T133fs*26(3)|p.T133fs*25(1)|p.N131fs*10(1)|p.N131*(1)|p.T133S(1)|p.Q132_T133insINQ(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)		GGTTAACCAAACTGAATTATT	0.428		1	D|Mis|N|F|S		renal|hemangioma|pheochromocytoma	renal|hemangioma|pheochromocytoma			von_Hippel-Lindau_disease|Chuvash_Polycythemia_|Pheochromocytoma_(Adrenal)_Familial				53	263	---	---	---	---	PASS
HHATL	57467	broad.mit.edu	37	3	42734320	42734320	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42734320C>T	uc003clw.2	-	13	1585	c.1438G>A	c.(1438-1440)GTC>ATC	p.V480I	HHATL_uc003clx.2_Missense_Mutation_p.V480I	NM_020707	NP_065758	Q9HCP6	HHATL_HUMAN	hedgehog acyltransferase-like	480	Helical; (Potential).				negative regulation of N-terminal protein palmitoylation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm				ovary(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.215)		ACCAGCTGGACGCCACAGTAG	0.597													21	80	---	---	---	---	PASS
CXCR6	10663	broad.mit.edu	37	3	45988047	45988047	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45988047A>G	uc003cpc.1	+	2	155	c.74A>G	c.(73-75)GAC>GGC	p.D25G	FYCO1_uc003cpb.3_Intron|FYCO1_uc011bal.1_Intron|CXCR6_uc010hix.1_Missense_Mutation_p.D25G	NM_006564	NP_006555	O00574	CXCR6_HUMAN	G protein-coupled receptor TYMSTR	25	Extracellular (Potential).		D -> A (in STRL33.3).		viral genome replication	integral to plasma membrane	coreceptor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		GAGCATCAAGACTTCCTGCAG	0.502													6	321	---	---	---	---	PASS
BAP1	8314	broad.mit.edu	37	3	52443729	52443729	+	Splice_Site	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52443729C>T	uc003ddx.2	-	2	182	c.67_splice	c.e2+1	p.G23_splice	PHF7_uc003ddy.2_5'Flank|PHF7_uc003ddz.2_5'Flank	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1						monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		AAGGCTCTTACCGAAATCTTC	0.662			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								5	27	---	---	---	---	PASS
IFT57	55081	broad.mit.edu	37	3	107881437	107881437	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:107881437T>C	uc003dwx.3	-	11	1425	c.1177A>G	c.(1177-1179)AGA>GGA	p.R393G		NM_018010	NP_060480	Q9NWB7	IFT57_HUMAN	estrogen-related receptor beta like 1	393	pDED.				activation of caspase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cilium|microtubule basal body	DNA binding|protein binding			ovary(1)|skin(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(3;0.0428)|Epithelial(53;0.246)			ATGCCAATTCTAATGTCCATC	0.388													7	735	---	---	---	---	PASS
CCDC14	64770	broad.mit.edu	37	3	123675113	123675113	+	Intron	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:123675113G>A	uc011bjx.1	-						CCDC14_uc003egv.3_5'Flank|CCDC14_uc003egx.3_5'UTR|CCDC14_uc010hrt.2_Intron|CCDC14_uc003egy.3_Intron|CCDC14_uc003egz.2_5'UTR	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14							centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		CTTCCTTAGAGCAATTAATAC	0.239													10	90	---	---	---	---	PASS
SLC12A8	84561	broad.mit.edu	37	3	124906161	124906161	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:124906161C>T	uc003ehv.3	-	4	421	c.310G>A	c.(310-312)GGT>AGT	p.G104S	SLC12A8_uc003ehw.3_Missense_Mutation_p.G133S|SLC12A8_uc010hrz.1_5'UTR	NM_024628	NP_078904	A0AV02	S12A8_HUMAN	solute carrier family 12, member 8	104	Helical; (Potential).				potassium ion transport	integral to membrane	symporter activity				0						TAGACGCCACCGCTGCCGATG	0.647													3	31	---	---	---	---	PASS
MED12L	116931	broad.mit.edu	37	3	151100523	151100523	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151100523G>T	uc003eyp.2	+	31	4603	c.4565G>T	c.(4564-4566)CGC>CTC	p.R1522L	MED12L_uc011bnz.1_Missense_Mutation_p.R1382L|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.R685L	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1522					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)			TTGCAACTCCGCCTAAATTTG	0.388													11	177	---	---	---	---	PASS
PLCH1	23007	broad.mit.edu	37	3	155215167	155215167	+	Missense_Mutation	SNP	T	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155215167T>G	uc011bok.1	-	14	2077	c.1800A>C	c.(1798-1800)GAA>GAC	p.E600D	PLCH1_uc011boj.1_Missense_Mutation_p.E600D|PLCH1_uc011bol.1_Missense_Mutation_p.E582D	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	600					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			AATCAGAGAGTTCTCGGCAGA	0.468													25	145	---	---	---	---	PASS
EIF2B5	8893	broad.mit.edu	37	3	183859715	183859715	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183859715G>A	uc003fmp.2	+	8	1523	c.1159G>A	c.(1159-1161)GAT>AAT	p.D387N	EIF2B5_uc003fmq.2_Missense_Mutation_p.D108N|EIF2B5_uc003fmr.2_5'Flank	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	387					astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			TGAGCCAGGTGATAACGTGGT	0.572													9	67	---	---	---	---	PASS
MUC4	4585	broad.mit.edu	37	3	195507228	195507228	+	Missense_Mutation	SNP	G	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195507228G>C	uc011bto.1	-	3	11299	c.10839C>G	c.(10837-10839)CAC>CAG	p.H3613Q	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_5'Flank|MUC4_uc011btg.1_5'Flank|MUC4_uc011bth.1_5'Flank|MUC4_uc011bti.1_5'Flank|MUC4_uc011btj.1_5'Flank|MUC4_uc011btk.1_5'Flank|MUC4_uc011btl.1_5'Flank|MUC4_uc011btm.1_5'Flank|MUC4_uc011btn.1_5'Flank|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GAGGGGTGACGTGACCTGTGG	0.582													3	8	---	---	---	---	PASS
MUC4	4585	broad.mit.edu	37	3	195511310	195511310	+	Missense_Mutation	SNP	G	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195511310G>C	uc011bto.1	-	2	7601	c.7141C>G	c.(7141-7143)CAC>GAC	p.H2381D	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGGGTGGTGTGACCTGAGGAT	0.592													3	31	---	---	---	---	PASS
MFSD7	84179	broad.mit.edu	37	4	680061	680061	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:680061C>T	uc003gay.2	-	3	382	c.325G>A	c.(325-327)GGG>AGG	p.G109R	MFSD7_uc003gaw.2_5'Flank|MFSD7_uc003gax.2_Missense_Mutation_p.G109R|MFSD7_uc003gaz.2_Intron|MFSD7_uc003gba.2_Intron|MFSD7_uc003gbb.1_Missense_Mutation_p.G45R	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	109	Helical; (Potential).				transmembrane transport	integral to membrane					0						AGCACACTCCCGGCAAAGTTC	0.652													5	26	---	---	---	---	PASS
POLR2B	5431	broad.mit.edu	37	4	57852557	57852557	+	Silent	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:57852557G>A	uc003hcl.1	+	2	100	c.57G>A	c.(55-57)CCG>CCA	p.P19P	POLR2B_uc011cae.1_Silent_p.P12P|POLR2B_uc011caf.1_5'UTR	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	19					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					AAATCACCCCGGATTTGTGGC	0.373													8	436	---	---	---	---	PASS
UGT2B10	7365	broad.mit.edu	37	4	69682183	69682183	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69682183C>T	uc003hee.2	+	1	471	c.446C>T	c.(445-447)GCA>GTA	p.A149V	UGT2B10_uc011cam.1_Missense_Mutation_p.A149V	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	149					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						ATCGTTTTTGCAGATGCTTAT	0.373													5	248	---	---	---	---	PASS
RASGEF1B	153020	broad.mit.edu	37	4	82377759	82377759	+	Intron	SNP	C	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82377759C>A	uc003hmi.1	-						RASGEF1B_uc003hmj.1_Intron|RASGEF1B_uc010ijq.1_Intron|RASGEF1B_uc003hmk.2_Missense_Mutation_p.A162S	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						CCCACCCAGGCTCTGCCTGGG	0.483													8	139	---	---	---	---	PASS
RAP1GDS1	5910	broad.mit.edu	37	4	99338032	99338032	+	Silent	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:99338032T>C	uc003htx.3	+	8	1090	c.900T>C	c.(898-900)CTT>CTC	p.L300L	RAP1GDS1_uc003htw.3_Silent_p.L301L|RAP1GDS1_uc003htv.3_Silent_p.L301L|RAP1GDS1_uc003htz.3_Silent_p.L251L|RAP1GDS1_uc003hty.3_Silent_p.L252L|RAP1GDS1_uc003hua.3_Silent_p.L209L	NM_001100427	NP_001093897	P52306	GDS1_HUMAN	RAP1, GTP-GDP dissociation stimulator 1 isoform	300							binding|GTPase activator activity			ovary(1)|lung(1)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;2.9e-07)|LUSC - Lung squamous cell carcinoma(1;0.0253)|Lung(1;0.0576)		TTTTATTACTTCTTGGAGGTG	0.343			T	NUP98	T-ALL								7	388	---	---	---	---	PASS
FAT4	79633	broad.mit.edu	37	4	126242662	126242662	+	Missense_Mutation	SNP	A	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126242662A>T	uc003ifj.3	+	1	5096	c.5096A>T	c.(5095-5097)GAG>GTG	p.E1699V		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1699	Cadherin 16.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTGGACCGGGAGCAAGGAGCA	0.413													12	108	---	---	---	---	PASS
TTC29	83894	broad.mit.edu	37	4	147861016	147861016	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:147861016C>T	uc003ikw.3	-	3	259	c.32G>A	c.(31-33)CGC>CAC	p.R11H	TTC29_uc010ipc.2_RNA|TTC29_uc003ikx.3_Missense_Mutation_p.R37H|TTC29_uc010ipd.1_Missense_Mutation_p.R11H	NM_031956	NP_114162	Q8NA56	TTC29_HUMAN	tetratricopeptide repeat domain 29	11							binding				0	all_hematologic(180;0.151)					AAGCTTCGGGCGTGTCATGGG	0.433													6	451	---	---	---	---	PASS
LRAT	9227	broad.mit.edu	37	4	155670221	155670221	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155670221C>T	uc003iom.1	+	2	953	c.626C>T	c.(625-627)ACG>ATG	p.T209M	LRAT_uc003ion.1_Missense_Mutation_p.T209M	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	209	Helical; (Potential).				response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)	ATAGTCTGTACGGGCTTGGTA	0.408													5	660	---	---	---	---	PASS
TLL1	7092	broad.mit.edu	37	4	167022030	167022030	+	3'UTR	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:167022030A>G	uc003irh.1	+	21					TLL1_uc011cjn.1_3'UTR|TLL1_uc011cjo.1_3'UTR	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor						cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		AAAAAATAACACCAAAACCTC	0.313													7	559	---	---	---	---	PASS
NEK1	4750	broad.mit.edu	37	4	170482854	170482854	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:170482854C>T	uc003isb.1	-	14	1667	c.1175G>A	c.(1174-1176)AGG>AAG	p.R392K	NEK1_uc003isc.1_Missense_Mutation_p.R392K|NEK1_uc003isd.1_Missense_Mutation_p.R392K|NEK1_uc003ise.1_Missense_Mutation_p.R392K|NEK1_uc003isf.1_Missense_Mutation_p.R392K|NEK1_uc003isg.1_Missense_Mutation_p.R313K	NM_012224	NP_036356	Q96PY6	NEK1_HUMAN	NIMA-related kinase 1	392					cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)		CTTTTCTTGCCTTTTCATTTG	0.284													4	225	---	---	---	---	PASS
WDR17	116966	broad.mit.edu	37	4	177100766	177100766	+	3'UTR	SNP	A	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177100766A>T	uc003iuj.2	+	31					WDR17_uc003iuk.2_3'UTR|WDR17_uc003ium.3_3'UTR|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_3'UTR	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1											ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TTTTTTTTTTAAAGAAAAACT	0.403													5	189	---	---	---	---	PASS
TRIML2	205860	broad.mit.edu	37	4	189026033	189026033	+	Silent	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:189026033T>C	uc003izl.2	-	2	129	c.93A>G	c.(91-93)AAA>AAG	p.K31K	TRIML2_uc011cle.1_Silent_p.K81K|TRIML2_uc011clf.1_Silent_p.K81K	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	31	Potential.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		TCAATATGCTTTTAGCTGCTT	0.378													7	720	---	---	---	---	PASS
NLN	57486	broad.mit.edu	37	5	65088498	65088498	+	Intron	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65088498C>T	uc003juf.2	+						NLN_uc003jue.2_Missense_Mutation_p.P515S|NLN_uc003jug.2_Intron|NLN_uc010iww.2_Intron	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor						proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		TTTTTTTTTTCCCCCAGTAAA	0.428													6	291	---	---	---	---	PASS
PCDHB1	29930	broad.mit.edu	37	5	140432180	140432180	+	Silent	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140432180C>T	uc003lik.1	+	1	1202	c.1125C>T	c.(1123-1125)GAC>GAT	p.D375D		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	375	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGACCGGGACATTCGAGTGG	0.493													40	184	---	---	---	---	PASS
CAMK2A	815	broad.mit.edu	37	5	149619293	149619293	+	Intron	SNP	T	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149619293T>G	uc003lru.2	-						CAMK2A_uc003lrs.2_Intron|CAMK2A_uc003lrt.2_Missense_Mutation_p.K331Q|CAMK2A_uc010jhe.2_Missense_Mutation_p.K311Q	NM_171825	NP_741960	Q9UQM7	KCC2A_HUMAN	calcium/calmodulin-dependent protein kinase II						interferon-gamma-mediated signaling pathway|positive regulation of NF-kappaB transcription factor activity|synaptic transmission	cell junction|cytosol|endocytic vesicle membrane|nucleoplasm|presynaptic membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)	1		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAACTGGACTTTCTTTTCTGG	0.547													32	208	---	---	---	---	PASS
SERPINB6	5269	broad.mit.edu	37	6	2949225	2949225	+	Missense_Mutation	SNP	T	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:2949225T>G	uc003muk.2	-	5	2647	c.652A>C	c.(652-654)ATC>CTC	p.I218L	SERPINB6_uc003mui.2_Missense_Mutation_p.I101L|SERPINB6_uc003muj.2_RNA|SERPINB6_uc003mul.2_Missense_Mutation_p.I218L|SERPINB6_uc003mum.2_Missense_Mutation_p.I218L|SERPINB6_uc003mun.2_Missense_Mutation_p.I218L|SERPINB6_uc003muo.2_Missense_Mutation_p.I218L	NM_004568	NP_004559	P35237	SPB6_HUMAN	serine (or cysteine) proteinase inhibitor, clade	218					regulation of proteolysis	centrosome|cytosol|protein complex	protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Drotrecogin alfa(DB00055)	AGCACCAAGATTTGGGTAAAT	0.393													26	406	---	---	---	---	PASS
BTN3A1	11119	broad.mit.edu	37	6	26413444	26413444	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26413444T>C	uc003nhv.2	+	10	1434	c.1066T>C	c.(1066-1068)TCT>CCT	p.S356P	BTN3A1_uc011dkj.1_3'UTR|BTN3A1_uc011dkk.1_Missense_Mutation_p.S304P|BTN3A1_uc010jqj.2_3'UTR	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	356	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						CCTCCTTGTTTCTGAGGACCA	0.498													5	196	---	---	---	---	PASS
CYB5R4	51167	broad.mit.edu	37	6	84603296	84603296	+	Silent	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:84603296A>G	uc003pkf.2	+	3	417	c.285A>G	c.(283-285)GAA>GAG	p.E95E		NM_016230	NP_057314	Q7L1T6	NB5R4_HUMAN	cytochrome b5 reductase 4	95	Cytochrome b5 heme-binding.				cell development|detection of oxygen|generation of precursor metabolites and energy|glucose homeostasis|insulin secretion|response to antibiotic|superoxide metabolic process	endoplasmic reticulum|perinuclear region of cytoplasm	cytochrome-b5 reductase activity|heme binding|NAD(P)H oxidase activity			breast(2)	2		all_cancers(76;7e-07)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00128)		BRCA - Breast invasive adenocarcinoma(397;0.0871)		GAGAAGATGAACTAATGAGAG	0.378													7	569	---	---	---	---	PASS
TAAR6	319100	broad.mit.edu	37	6	132892315	132892315	+	Silent	SNP	C	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132892315C>A	uc011eck.1	+	1	855	c.855C>A	c.(853-855)GGC>GGA	p.G285G		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	285	Helical; Name=7; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		CCTTTATGGGCTTTATAACCC	0.373													8	254	---	---	---	---	PASS
TNRC18	84629	broad.mit.edu	37	7	5348898	5348898	+	Silent	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5348898G>A	uc003soi.3	-	28	8839	c.8490C>T	c.(8488-8490)GCC>GCT	p.A2830A		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2830	BAH.						DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		TGGGGCGGCCGGCAGAGAGGA	0.637													6	23	---	---	---	---	PASS
TAX1BP1	8887	broad.mit.edu	37	7	27824837	27824837	+	Missense_Mutation	SNP	G	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27824837G>C	uc003szl.2	+	6	826	c.668G>C	c.(667-669)AGG>ACG	p.R223T	TAX1BP1_uc011jzo.1_Missense_Mutation_p.R223T|TAX1BP1_uc003szk.2_Missense_Mutation_p.R223T|TAX1BP1_uc011jzp.1_Missense_Mutation_p.R66T	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	223	Potential.				anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			TTTAAGAAGAGGTTCAGTGAT	0.353													10	526	---	---	---	---	PASS
HECW1	23072	broad.mit.edu	37	7	43548579	43548579	+	Missense_Mutation	SNP	G	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43548579G>C	uc003tid.1	+	24	4483	c.3878G>C	c.(3877-3879)AGT>ACT	p.S1293T	HECW1_uc011kbi.1_Missense_Mutation_p.S1259T|uc003tig.1_RNA	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1293	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CTGGACTACAGTGGCCCCTCG	0.537													7	276	---	---	---	---	PASS
HEPACAM2	253012	broad.mit.edu	37	7	92825202	92825202	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92825202G>T	uc003umm.2	-	8	1237	c.1214C>A	c.(1213-1215)GCT>GAT	p.A405D	HEPACAM2_uc003uml.2_Missense_Mutation_p.A393D|HEPACAM2_uc010lff.2_Missense_Mutation_p.L385I|HEPACAM2_uc011khy.1_Missense_Mutation_p.A428D	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	405	Cytoplasmic (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5						GTCATCCAGAGCATCTTCATG	0.363													7	326	---	---	---	---	PASS
RBM28	55131	broad.mit.edu	37	7	127979296	127979296	+	Silent	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127979296C>T	uc003vmp.2	-	3	472	c.357G>A	c.(355-357)CGG>CGA	p.R119R	RBM28_uc011koj.1_Intron|RBM28_uc011kok.1_Silent_p.R66R	NM_018077	NP_060547	Q9NW13	RBM28_HUMAN	RNA binding motif protein 28	119	RRM 2.				mRNA processing|RNA splicing	Golgi apparatus|nucleolus|spliceosomal complex	nucleotide binding|RNA binding			ovary(2)	2						AGCTCAGGTTCCGAATAATTA	0.388													10	498	---	---	---	---	PASS
DUSP26	78986	broad.mit.edu	37	8	33451243	33451243	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33451243C>T	uc003xjp.2	-	3	577	c.244G>A	c.(244-246)GAG>AAG	p.E82K	DUSP26_uc003xjq.2_Missense_Mutation_p.E82K	NM_024025	NP_076930	Q9BV47	DUS26_HUMAN	dual specificity phosphatase 26	82	Tyrosine-protein phosphatase.					Golgi apparatus|nucleus	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0				KIRC - Kidney renal clear cell carcinoma(67;0.0918)|Kidney(114;0.111)		CGGCGAAGCTCCCGGCGGTTG	0.617													4	34	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77768349	77768349	+	Silent	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77768349T>C	uc003yav.2	+	10	9444	c.9057T>C	c.(9055-9057)CTT>CTC	p.L3019L	ZFHX4_uc003yau.1_Silent_p.L3064L|ZFHX4_uc003yaw.1_Silent_p.L3019L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3019						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)			AGCAAGAACTTGATCGTATAA	0.537										HNSCC(33;0.089)			5	55	---	---	---	---	PASS
TMEM67	91147	broad.mit.edu	37	8	94809580	94809580	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:94809580C>T	uc011lgk.1	+	20	2053	c.1982C>T	c.(1981-1983)GCC>GTC	p.A661V	TMEM67_uc010maw.2_Missense_Mutation_p.A367V|TMEM67_uc003yga.3_Missense_Mutation_p.A580V|TMEM67_uc011lgl.1_Missense_Mutation_p.A60V	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1	661					cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			GTACGAAGTGCCACTGTTCCT	0.363													6	563	---	---	---	---	PASS
HAUS6	54801	broad.mit.edu	37	9	19056114	19056114	+	3'UTR	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19056114G>T	uc003znk.2	-	17					HAUS6_uc011lmz.1_3'UTR	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6						cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						GACGTTTGTTGTCCAAATACT	0.303													3	18	---	---	---	---	PASS
BAAT	570	broad.mit.edu	37	9	104125264	104125264	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104125264A>G	uc010mtd.2	-	4	812	c.703T>C	c.(703-705)TGT>CGT	p.C235R	BAAT_uc004bbd.3_Missense_Mutation_p.C235R	NM_001127610	NP_001121082	Q14032	BAAT_HUMAN	bile acid Coenzyme A: amino acid	235		Charge relay system (Probable).		C->A: Abolishes activity.|C->S: Lowers N-acyltransferase activity; enhanced thioesterase activity presumably dependent on the formation of a bile acid-enzyme covalent intermediate via a thioester bond.	acyl-CoA metabolic process|bile acid and bile salt transport|bile acid biosynthetic process|digestion|fatty acid metabolic process|glycine metabolic process	cytosol|peroxisomal matrix	carboxylesterase activity|glycine N-choloyltransferase activity|N-acyltransferase activity|palmitoyl-CoA hydrolase activity			ovary(1)|lung(1)|skin(1)	3		Acute lymphoblastic leukemia(62;0.0559)			Glycine(DB00145)	ACTCCTTGACATACAGAGACT	0.393													5	142	---	---	---	---	PASS
TBC1D13	54662	broad.mit.edu	37	9	131554791	131554791	+	Missense_Mutation	SNP	C	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131554791C>G	uc010myj.2	+	6	444	c.321C>G	c.(319-321)GAC>GAG	p.D107E	TBC1D13_uc010myk.2_Missense_Mutation_p.D107E|TBC1D13_uc010myl.2_Intron	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	107	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0						CCAACCCTGACAGCCGGTGGA	0.617													5	101	---	---	---	---	PASS
ITIH5	80760	broad.mit.edu	37	10	7608251	7608251	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7608251C>T	uc001ijq.2	-	13	2348	c.2269G>A	c.(2269-2271)GAG>AAG	p.E757K	ITIH5_uc001ijp.2_Missense_Mutation_p.E543K	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	757					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						GGTGTGATCTCGAGATAAGAT	0.567													4	202	---	---	---	---	PASS
ZNF33B	7582	broad.mit.edu	37	10	43088522	43088522	+	Nonsense_Mutation	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:43088522G>A	uc001jaf.1	-	5	1991	c.1876C>T	c.(1876-1878)CAG>TAG	p.Q626*	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Nonsense_Mutation_p.Q514*|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	626	C2H2-type 11.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTCTGATGCTGAGTGAGTTGT	0.388													23	172	---	---	---	---	PASS
PIPSL	266971	broad.mit.edu	37	10	95720250	95720250	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:95720250G>A	uc009xuj.2	-	1	1423	c.904C>T	c.(904-906)CCC>TCC	p.P302S		NR_002319				RecName: Full=Phosphatidylinositol-4-phosphate 5-kinase type-1 alpha;          Short=PtdIns(4)P-5-kinase alpha;          Short=PIP5KIalpha;          EC=2.7.1.68; AltName: Full=Phosphatidylinositol-4-phosphate 5-kinase type I alpha; AltName: Full=68 kDa type I phosphatidylinositol-4-phosphate 5-kinase alpha;												0						GCCTTTTGGGGGGCTGGTCTT	0.512													4	102	---	---	---	---	PASS
CYP2C19	1557	broad.mit.edu	37	10	96534859	96534859	+	Silent	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96534859G>A	uc010qnz.1	+	2	213	c.213G>A	c.(211-213)CTG>CTA	p.L71L	CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Silent_p.L49L	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	71					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	ATTTTGGCCTGGAACGCATGG	0.443													100	706	---	---	---	---	PASS
OR4A47	403253	broad.mit.edu	37	11	48510648	48510648	+	Nonsense_Mutation	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48510648G>T	uc010rhx.1	+	1	304	c.304G>T	c.(304-306)GAG>TAG	p.E102*		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	102	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCTCTTTATCGAGCACATTTT	0.433													4	146	---	---	---	---	PASS
OR9G4	283189	broad.mit.edu	37	11	56510802	56510802	+	Silent	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56510802G>T	uc010rjo.1	-	1	486	c.486C>A	c.(484-486)GGC>GGA	p.G162G		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	162	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						CTATGTAGGAGCCAGCAACAA	0.463													4	85	---	---	---	---	PASS
TBCEL	219899	broad.mit.edu	37	11	120957574	120957574	+	Silent	SNP	C	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120957574C>A	uc009zay.2	+	8	1122	c.1044C>A	c.(1042-1044)GTC>GTA	p.V348V	TBCEL_uc001pxo.2_Silent_p.V348V|TBCEL_uc001pxp.2_Silent_p.V204V|TBCEL_uc001pxq.2_RNA	NM_001130047	NP_001123519	Q5QJ74	TBCEL_HUMAN	tubulin folding cofactor E-like	348	Ubiquitin-like.					cytoplasm|cytoskeleton				skin(1)	1		Breast(109;0.00526)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.89e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.121)		AAGTAGAAGTCCACTTTAACG	0.418													15	240	---	---	---	---	PASS
CCND2	894	broad.mit.edu	37	12	4398012	4398012	+	Silent	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4398012T>C	uc001qmo.2	+	4	881	c.576T>C	c.(574-576)TTT>TTC	p.F192F		NM_001759	NP_001750	P30279	CCND2_HUMAN	cyclin D2	192					cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding			haematopoietic_and_lymphoid_tissue(1)|breast(1)|kidney(1)	3			all cancers(3;4.15e-10)|GBM - Glioblastoma multiforme(3;6.34e-05)|Colorectal(7;0.00245)|OV - Ovarian serous cystadenocarcinoma(31;0.00301)|COAD - Colon adenocarcinoma(12;0.0264)|STAD - Stomach adenocarcinoma(119;0.206)			TTGCAGACTTTAAGTTTGCCA	0.552			T	IGL@	NHL,CLL								14	89	---	---	---	---	PASS
PZP	5858	broad.mit.edu	37	12	9346786	9346786	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9346786A>G	uc001qvl.2	-	11	1170	c.1141T>C	c.(1141-1143)TTC>CTC	p.F381L	PZP_uc009zgl.2_Missense_Mutation_p.F250L	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						ACAGAGATGAAGAAGAGTTTA	0.418													7	613	---	---	---	---	PASS
TAS2R42	353164	broad.mit.edu	37	12	11338661	11338661	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11338661C>T	uc001qzr.1	-	1	883	c.883G>A	c.(883-885)GCT>ACT	p.A295T	PRB4_uc001qzf.1_Intron	NM_181429	NP_852094	Q7RTR8	T2R42_HUMAN	taste receptor, type 2, member 42	295	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.0455)			AGCCTCACAGCTGTCTGTCGC	0.403													4	206	---	---	---	---	PASS
PIK3C2G	5288	broad.mit.edu	37	12	18534778	18534778	+	Silent	SNP	G	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:18534778G>C	uc001rdt.2	+	13	1952	c.1836G>C	c.(1834-1836)GTG>GTC	p.V612V	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Silent_p.V653V|PIK3C2G_uc010sic.1_Silent_p.V431V	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	612					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				CTCCAGGAGTGTGGGATGTAA	0.458													6	220	---	---	---	---	PASS
CAPZA3	93661	broad.mit.edu	37	12	18891595	18891595	+	Silent	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:18891595C>T	uc001rdy.2	+	1	551	c.393C>T	c.(391-393)GAC>GAT	p.D131D	PLCZ1_uc001rdv.3_5'Flank|PLCZ1_uc001rdw.3_5'Flank|PLCZ1_uc010sid.1_5'Flank	NM_033328	NP_201585	Q96KX2	CAZA3_HUMAN	capping protein alpha 3	131					actin cytoskeleton organization|actin filament capping	F-actin capping protein complex	actin binding			ovary(1)|central_nervous_system(1)	2	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)	Hepatocellular(102;0.194)				ATGTGAATGACCACTATCCAA	0.383													37	212	---	---	---	---	PASS
GYS2	2998	broad.mit.edu	37	12	21689897	21689897	+	Nonsense_Mutation	SNP	A	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21689897A>T	uc001rfb.2	-	16	2358	c.2103T>A	c.(2101-2103)TAT>TAA	p.Y701*		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	701					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						TTCAGTTCTTATATTCACCAT	0.358													8	356	---	---	---	---	PASS
HOXC9	3225	broad.mit.edu	37	12	54393943	54393943	+	5'UTR	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54393943A>G	uc001sep.2	+	2					HOXC9_uc001seq.2_5'UTR	NM_006897	NP_008828	P31274	HXC9_HUMAN	homeobox C9						multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)|skin(1)	3						AGTTCATACAATAATCTTATG	0.453													4	48	---	---	---	---	PASS
IL22	50616	broad.mit.edu	37	12	68646407	68646407	+	Silent	SNP	C	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:68646407C>A	uc001sty.1	-	3	326	c.273G>T	c.(271-273)CTG>CTT	p.L91L	IL22_uc010stb.1_Silent_p.L91L	NM_020525	NP_065386	Q9GZX6	IL22_HUMAN	interleukin 22 precursor	91					acute-phase response	extracellular space	cytokine activity|interleukin-22 receptor binding				0		Myeloproliferative disorder(1001;0.0255)	Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;5.06e-05)|BRCA - Breast invasive adenocarcinoma(357;0.00104)		CCTGCTTCATCAGATAGCAGC	0.517													16	101	---	---	---	---	PASS
TMTC2	160335	broad.mit.edu	37	12	83290073	83290073	+	Missense_Mutation	SNP	T	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:83290073T>G	uc001szt.2	+	3	1563	c.1131T>G	c.(1129-1131)ATT>ATG	p.I377M	TMTC2_uc001szr.1_Missense_Mutation_p.I377M|TMTC2_uc001szs.1_Missense_Mutation_p.I377M|TMTC2_uc010suk.1_Missense_Mutation_p.I132M	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	377						endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						AAAATGGCATTAAAAACGATG	0.423													8	303	---	---	---	---	PASS
LTA4H	4048	broad.mit.edu	37	12	96397644	96397644	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:96397644C>T	uc001ten.1	-	17	1653	c.1585G>A	c.(1585-1587)GCC>ACC	p.A529T	LTA4H_uc010suy.1_Missense_Mutation_p.A491T|LTA4H_uc010suz.1_Intron|LTA4H_uc010sva.1_RNA	NM_000895	NP_000886	P09960	LKHA4_HUMAN	leukotriene A4 hydrolase	529					hormone biosynthetic process|inflammatory response|leukotriene biosynthetic process|peptide catabolic process|prostanoid metabolic process|proteolysis	cytosol|nucleus	aminopeptidase activity|epoxide hydrolase activity|leukotriene-A4 hydrolase activity|metallopeptidase activity|protein binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(1)	1						TTGTTAATGGCATTGAAGTTG	0.378													60	417	---	---	---	---	PASS
NEDD1	121441	broad.mit.edu	37	12	97328927	97328927	+	Silent	SNP	C	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:97328927C>G	uc001teu.3	+	7	1002	c.663C>G	c.(661-663)CTC>CTG	p.L221L	NEDD1_uc001tev.3_Silent_p.L221L|NEDD1_uc010svc.1_Silent_p.L132L|NEDD1_uc001tew.2_Silent_p.L228L|NEDD1_uc001tex.2_Silent_p.L132L	NM_152905	NP_690869	Q8NHV4	NEDD1_HUMAN	neural precursor cell expressed, developmentally	221	WD 6.				cell division|G2/M transition of mitotic cell cycle|mitosis	cytosol					0						ATGAATTGCTCTTTGTAACCA	0.373													8	501	---	---	---	---	PASS
HIP1R	9026	broad.mit.edu	37	12	123340840	123340840	+	Silent	SNP	G	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123340840G>C	uc001udj.1	+	15	1409	c.1350G>C	c.(1348-1350)CTG>CTC	p.L450L	HIP1R_uc001udg.1_Silent_p.L438L|HIP1R_uc001udi.1_Silent_p.L450L|HIP1R_uc001udk.1_5'UTR	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	450	Potential.				receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		ACAACAAGCTGAAGGAAAAGC	0.667													9	55	---	---	---	---	PASS
HIP1R	9026	broad.mit.edu	37	12	123340841	123340841	+	Nonsense_Mutation	SNP	A	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123340841A>T	uc001udj.1	+	15	1410	c.1351A>T	c.(1351-1353)AAG>TAG	p.K451*	HIP1R_uc001udg.1_Nonsense_Mutation_p.K439*|HIP1R_uc001udi.1_Nonsense_Mutation_p.K451*|HIP1R_uc001udk.1_5'UTR	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	451	Potential.				receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		CAACAAGCTGAAGGAAAAGCA	0.667													9	55	---	---	---	---	PASS
RNF17	56163	broad.mit.edu	37	13	25424496	25424496	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25424496A>G	uc001upr.2	+	23	3160	c.3119A>G	c.(3118-3120)GAC>GGC	p.D1040G	RNF17_uc010tdd.1_Missense_Mutation_p.D899G|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.D1040G|RNF17_uc001ups.2_Missense_Mutation_p.D979G|RNF17_uc010aac.2_Missense_Mutation_p.D238G|RNF17_uc010aad.2_Missense_Mutation_p.D92G	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	1040					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		GGTGGGAGTGACAAGTGGACA	0.373													7	324	---	---	---	---	PASS
MTMR6	9107	broad.mit.edu	37	13	25828069	25828069	+	Silent	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25828069G>A	uc001uqf.3	-	11	1498	c.1179C>T	c.(1177-1179)GTC>GTT	p.V393V	MTMR6_uc001uqe.1_Silent_p.V393V	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	393	Myotubularin phosphatase.					cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		ACACTGGTGAGACTTCCTTTG	0.423													9	248	---	---	---	---	PASS
C13orf15	28984	broad.mit.edu	37	13	42040957	42040957	+	Splice_Site	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42040957A>G	uc001uyi.2	+	3	538	c.236_splice	c.e3-2	p.S79_splice		NM_014059	NP_054778	Q9H4X1	RGC32_HUMAN	response gene to complement 32						cell cycle|regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus					0		Lung NSC(96;7.5e-06)|Prostate(109;0.0181)|Breast(139;0.0204)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;8.62e-09)|Epithelial(112;8.99e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000504)|GBM - Glioblastoma multiforme(144;0.000909)|BRCA - Breast invasive adenocarcinoma(63;0.0679)		CCTTCCTGAAAGGTGCAGATT	0.368													6	314	---	---	---	---	PASS
RBM26	64062	broad.mit.edu	37	13	79951543	79951543	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:79951543G>A	uc001vkz.2	-	3	312	c.298C>T	c.(298-300)CAC>TAC	p.H100Y	RBM26_uc001vky.2_Missense_Mutation_p.H100Y|RBM26_uc001vla.2_Missense_Mutation_p.H100Y|RBM26_uc001vlc.1_Missense_Mutation_p.H100Y	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	100					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)		TTTTCTTGGTGTGGAAAAAAT	0.353													8	605	---	---	---	---	PASS
PROX2	283571	broad.mit.edu	37	14	75323583	75323583	+	Missense_Mutation	SNP	G	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75323583G>C	uc001xqr.1	-	3	1529	c.1529C>G	c.(1528-1530)CCC>CGC	p.P510R	uc001xqp.1_5'Flank|PROX2_uc001xqq.1_Missense_Mutation_p.P209R	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	510	Prospero-like.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		CAGCATTTTGGGATTTGTGAC	0.423													11	207	---	---	---	---	PASS
ATG2B	55102	broad.mit.edu	37	14	96752043	96752043	+	3'UTR	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96752043G>A	uc001yfi.2	-	42						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)		TCAGGACTCTGAGCTCCTGGT	0.443													17	52	---	---	---	---	PASS
RYR3	6263	broad.mit.edu	37	15	34129125	34129125	+	Missense_Mutation	SNP	C	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34129125C>G	uc001zhi.2	+	88	11657	c.11587C>G	c.(11587-11589)CTG>GTG	p.L3863V	RYR3_uc010bar.2_Missense_Mutation_p.L3858V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3863					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)		TCAGATCGAGCTGCTGAAGGA	0.507													16	383	---	---	---	---	PASS
CYP19A1	1588	broad.mit.edu	37	15	51507971	51507971	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51507971T>C	uc001zyz.3	-	8	1038	c.787A>G	c.(787-789)AGA>GGA	p.R263G	CYP19A1_uc001zza.3_Missense_Mutation_p.R263G|CYP19A1_uc001zzb.2_Missense_Mutation_p.R263G|CYP19A1_uc001zzc.1_RNA	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	263					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)	ATCCTGCGTCTTTTTTCTGCT	0.373													8	726	---	---	---	---	PASS
MAPK6	5597	broad.mit.edu	37	15	52338676	52338676	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52338676A>G	uc002abp.2	+	2	813	c.19A>G	c.(19-21)AGT>GGT	p.S7G		NM_002748	NP_002739	Q16659	MK06_HUMAN	mitogen-activated protein kinase 6	7					cell cycle		ATP binding|MAP kinase activity			lung(3)|ovary(1)	4				all cancers(107;0.0028)		GAAATTTGAAAGTCTCATGAA	0.373													7	518	---	---	---	---	PASS
GNB5	10681	broad.mit.edu	37	15	52476846	52476846	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52476846C>T	uc002abt.1	-	2	93	c.28G>A	c.(28-30)GTA>ATA	p.V10I	uc002abv.2_Intron	NM_016194	NP_057278	O14775	GBB5_HUMAN	guanine nucleotide-binding protein, beta-5	10						heterotrimeric G-protein complex	GTPase activity|signal transducer activity			lung(1)	1				all cancers(107;0.0163)		GAGCCAAATACATTAACGAGA	0.388													31	395	---	---	---	---	PASS
ZNF280D	54816	broad.mit.edu	37	15	56959007	56959007	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:56959007G>A	uc002adu.2	-	15	1940	c.1723C>T	c.(1723-1725)CCT>TCT	p.P575S	ZNF280D_uc002adv.2_Missense_Mutation_p.P562S|ZNF280D_uc010bfq.2_Missense_Mutation_p.P575S|ZNF280D_uc002adw.1_Missense_Mutation_p.P603S|ZNF280D_uc010bfr.1_RNA|ZNF280D_uc010bfp.2_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	575					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		CTTGTATTAGGTTTACTTGCG	0.323													115	693	---	---	---	---	PASS
CCDC33	80125	broad.mit.edu	37	15	74565206	74565206	+	Missense_Mutation	SNP	C	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74565206C>G	uc002axo.2	+	7	1127	c.733C>G	c.(733-735)CGC>GGC	p.R245G	CCDC33_uc002axp.2_Missense_Mutation_p.R67G	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	448							protein binding			ovary(3)|skin(2)	5						TGACGTGCCTCGCGTCAGCCA	0.587													11	105	---	---	---	---	PASS
RASGRF1	5923	broad.mit.edu	37	15	79350815	79350815	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79350815G>T	uc002beq.2	-	3	767	c.392C>A	c.(391-393)ACC>AAC	p.T131N	RASGRF1_uc002bep.2_Missense_Mutation_p.T131N|RASGRF1_uc010blm.1_Missense_Mutation_p.T53N|RASGRF1_uc002ber.3_Missense_Mutation_p.T131N	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	131					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						TGTGGCGAGGGTCCTGTAGCT	0.582													4	163	---	---	---	---	PASS
ABCC6	368	broad.mit.edu	37	16	16256866	16256866	+	Nonsense_Mutation	SNP	G	A	A	rs72653744		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:16256866G>A	uc002den.3	-	24	3527	c.3490C>T	c.(3490-3492)CGA>TGA	p.R1164*	ABCC6_uc010bvo.2_Intron	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	1164	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		GCCACCAGTCGCGGGAAACTG	0.547													10	77	---	---	---	---	PASS
CLEC18C	283971	broad.mit.edu	37	16	70030052	70030052	+	Intron	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70030052A>G	uc002exy.2	+						PDXDC2_uc002eyb.2_RNA|PDXDC2_uc002eyc.2_RNA	NM_182619	NP_872425	Q8NCF0	CL18C_HUMAN	secretory protein LOC348174 precursor							extracellular region	sugar binding				0						TGGTCATGGGACAGGAACTGT	0.502													6	124	---	---	---	---	PASS
MLKL	197259	broad.mit.edu	37	16	74725235	74725235	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74725235T>C	uc002fdb.2	-	4	1103	c.662A>G	c.(661-663)GAA>GGA	p.E221G	MLKL_uc002fdc.2_Intron	NM_152649	NP_689862	Q8NB16	MLKL_HUMAN	mixed lineage kinase domain-like isoform 1	221	Protein kinase.						ATP binding|protein binding|protein kinase activity			stomach(2)	2						TCTGTGGTATTCTCCTTTATA	0.348													7	448	---	---	---	---	PASS
MBTPS1	8720	broad.mit.edu	37	16	84101412	84101412	+	Silent	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84101412C>T	uc002fhi.2	-	16	2590	c.2088G>A	c.(2086-2088)GTG>GTA	p.V696V	MBTPS1_uc002fhh.2_Silent_p.V200V	NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	696	Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						CCTCACTGTCCACCATCAGCA	0.527													14	134	---	---	---	---	PASS
SERPINF2	5345	broad.mit.edu	37	17	1650770	1650770	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1650770A>G	uc002ftk.1	+	7	756	c.679A>G	c.(679-681)ACC>GCC	p.T227A	SERPINF2_uc010vqr.1_Missense_Mutation_p.T163A	NM_000934	NP_000925	P08697	A2AP_HUMAN	alpha-2-antiplasmin isoform a precursor	227					acute-phase response|fibrinolysis|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)	Streptokinase(DB00086)	GCCGGAAGACACCGTGTTGCT	0.582													9	54	---	---	---	---	PASS
RICH2	9912	broad.mit.edu	37	17	12798265	12798265	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12798265A>G	uc002gnr.3	+	2	389	c.62A>G	c.(61-63)AAG>AGG	p.K21R	RICH2_uc010vvk.1_Missense_Mutation_p.K21R|RICH2_uc010vvl.1_Missense_Mutation_p.K21R|RICH2_uc002gns.3_5'UTR|RICH2_uc010vvm.1_Missense_Mutation_p.K21R|RICH2_uc010vvn.1_RNA	NM_014859	NP_055674	Q17R89	RHG44_HUMAN	Rho GTPase-activating protein RICH2	21	BAR.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						AGGGCTGAAAAGACAGAAGTT	0.338													8	733	---	---	---	---	PASS
FLJ36000	284124	broad.mit.edu	37	17	21904193	21904193	+	RNA	SNP	C	G	G	rs9904221	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21904193C>G	uc002gza.2	+	1		c.132C>G				NR_027084				Homo sapiens cDNA FLJ36000 fis, clone TESTI2015180.												0						cagcctcaggcctgccaggac	0.000													4	33	---	---	---	---	PASS
FLJ36000	284124	broad.mit.edu	37	17	21904197	21904197	+	RNA	SNP	C	T	T	rs9904223	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21904197C>T	uc002gza.2	+	1		c.136C>T				NR_027084				Homo sapiens cDNA FLJ36000 fis, clone TESTI2015180.												0						ctcaggcctgccaggacggtg	0.000													4	34	---	---	---	---	PASS
KIAA0100	9703	broad.mit.edu	37	17	26969021	26969021	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26969021T>C	uc002hbu.2	-	7	751	c.652A>G	c.(652-654)ACT>GCT	p.T218A	KIAA0100_uc002hbv.2_Missense_Mutation_p.T218A|KIAA0100_uc010crr.1_Missense_Mutation_p.T75A	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	218						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					GTGATAGCAGTGAGATGCCGA	0.562													14	59	---	---	---	---	PASS
MYO18A	399687	broad.mit.edu	37	17	27409435	27409435	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27409435G>T	uc002hdt.1	-	41	6077	c.5919C>A	c.(5917-5919)GAC>GAA	p.D1973E	MYO18A_uc010wbc.1_Missense_Mutation_p.D1491E|MYO18A_uc002hds.2_Missense_Mutation_p.D1500E|MYO18A_uc010csa.1_Missense_Mutation_p.D1921E|MYO18A_uc002hdu.1_Missense_Mutation_p.D1958E	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1973					anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CCAGCTCCGAGTCCACATCAG	0.562													16	77	---	---	---	---	PASS
CRLF3	51379	broad.mit.edu	37	17	29113043	29113043	+	Silent	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29113043T>C	uc002hfr.3	-	7	1075	c.966A>G	c.(964-966)GAA>GAG	p.E322E	CRLF3_uc010wbr.1_Silent_p.E206E	NM_015986	NP_057070	Q8IUI8	CRLF3_HUMAN	cytokine receptor-like factor 3	322					negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|positive regulation of cell cycle arrest|positive regulation of JAK-STAT cascade|positive regulation of transcription from RNA polymerase II promoter	cytoplasm					0		all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)				GTCCCACAGTTTCAACTCTGT	0.393													6	403	---	---	---	---	PASS
RHOT1	55288	broad.mit.edu	37	17	30551875	30551875	+	3'UTR	SNP	T	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30551875T>A	uc002hgz.2	+	19					RHOT1_uc002hgw.2_3'UTR|RHOT1_uc002hgy.2_3'UTR|RHOT1_uc002hha.2_3'UTR|RHOT1_uc010csv.2_RNA|RHOT1_uc002hgx.2_3'UTR|RHOT1_uc010wby.1_3'UTR|RHOT1_uc002hhb.2_3'UTR	NM_018307	NP_060777	Q8IXI2	MIRO1_HUMAN	ras homolog gene family, member T1 isoform 3						apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(56;0.0255)|Breast(31;0.116)|Ovarian(249;0.182)				ATATTTGTAATTCATGCATAA	0.284													7	51	---	---	---	---	PASS
RHOT1	55288	broad.mit.edu	37	17	30551882	30551882	+	3'UTR	SNP	A	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30551882A>C	uc002hgz.2	+	19					RHOT1_uc002hgw.2_3'UTR|RHOT1_uc002hgy.2_3'UTR|RHOT1_uc002hha.2_3'UTR|RHOT1_uc010csv.2_RNA|RHOT1_uc002hgx.2_3'UTR|RHOT1_uc010wby.1_3'UTR|RHOT1_uc002hhb.2_3'UTR	NM_018307	NP_060777	Q8IXI2	MIRO1_HUMAN	ras homolog gene family, member T1 isoform 3						apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(56;0.0255)|Breast(31;0.116)|Ovarian(249;0.182)				TAATTCATGCATAAGAGTATT	0.294													7	47	---	---	---	---	PASS
UNC45B	146862	broad.mit.edu	37	17	33513509	33513509	+	Silent	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33513509A>G	uc002hja.2	+	20	2824	c.2727A>G	c.(2725-2727)GAA>GAG	p.E909E	UNC45B_uc002hjb.2_Silent_p.E907E|UNC45B_uc002hjc.2_Silent_p.E907E|UNC45B_uc010cto.2_Silent_p.E828E	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	909					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				AGAAGGCAGAAGTGGTTCAGA	0.537													18	184	---	---	---	---	PASS
GPATCH8	23131	broad.mit.edu	37	17	42476348	42476348	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42476348A>G	uc002igw.1	-	8	3161	c.3097T>C	c.(3097-3099)TCC>CCC	p.S1033P	GPATCH8_uc002igv.1_Missense_Mutation_p.S955P|GPATCH8_uc010wiz.1_Missense_Mutation_p.S955P	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	1033						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		GGGGACTGGGAGCGGTAGATC	0.557													23	115	---	---	---	---	PASS
LRRC37A4	55073	broad.mit.edu	37	17	43587657	43587657	+	RNA	SNP	C	T	T	rs148404065	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43587657C>T	uc002ije.2	-	3		c.1397G>A			uc010wjp.1_RNA					Homo sapiens cDNA FLJ34414 fis, clone HEART2003168, highly similar to Homo sapiens c114 SLIT-like testicular protein (LOC474170), mRNA.												0						GGTGACAACACATCTGTTTTA	0.279													6	700	---	---	---	---	PASS
LAMA1	284217	broad.mit.edu	37	18	6983124	6983124	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6983124G>T	uc002knm.2	-	40	5864	c.5770C>A	c.(5770-5772)CAC>AAC	p.H1924N	LAMA1_uc010wzj.1_Missense_Mutation_p.H1400N	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1924	Domain II and I.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACAGTCCTGTGAGCATCTCTG	0.498													31	184	---	---	---	---	PASS
LOC644669	644669	broad.mit.edu	37	18	15323316	15323316	+	RNA	SNP	G	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:15323316G>C	uc002ktd.1	-	3		c.143C>G				NR_027417				Homo sapiens cDNA FLJ40312 fis, clone TESTI2029880.												0						TCCACAATTTGCTCACTTCTT	0.303													6	46	---	---	---	---	PASS
ABHD3	171586	broad.mit.edu	37	18	19231495	19231495	+	3'UTR	SNP	A	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19231495A>T	uc002ktl.2	-	9					ABHD3_uc002ktm.2_3'UTR|ABHD3_uc002ktk.2_3'UTR	NM_138340	NP_612213	Q8WU67	ABHD3_HUMAN	alpha/beta hydrolase domain containing protein							integral to membrane	carboxylesterase activity			central_nervous_system(1)	1						TTTGTGCACTAAGCTGAGCTG	0.378													17	98	---	---	---	---	PASS
ABHD3	171586	broad.mit.edu	37	18	19231521	19231521	+	3'UTR	SNP	T	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19231521T>A	uc002ktl.2	-	9					ABHD3_uc002ktm.2_3'UTR|ABHD3_uc002ktk.2_3'UTR	NM_138340	NP_612213	Q8WU67	ABHD3_HUMAN	alpha/beta hydrolase domain containing protein							integral to membrane	carboxylesterase activity			central_nervous_system(1)	1						ACAATTGTGGTTCAGACAAAA	0.413													25	120	---	---	---	---	PASS
ABHD3	171586	broad.mit.edu	37	18	19231546	19231546	+	3'UTR	SNP	T	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19231546T>A	uc002ktl.2	-	9					ABHD3_uc002ktm.2_3'UTR|ABHD3_uc002ktk.2_3'UTR	NM_138340	NP_612213	Q8WU67	ABHD3_HUMAN	alpha/beta hydrolase domain containing protein							integral to membrane	carboxylesterase activity			central_nervous_system(1)	1						CCCAAAGAACTACATGTTAAG	0.423													33	151	---	---	---	---	PASS
SLC39A6	25800	broad.mit.edu	37	18	33704524	33704524	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33704524T>C	uc010dmy.2	-	3	1219	c.929A>G	c.(928-930)AAG>AGG	p.K310R	SLC39A6_uc002kzj.2_Missense_Mutation_p.K35R	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	310	Extracellular (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						TTCAGCCTTCTTTTCACTTGT	0.358													7	517	---	---	---	---	PASS
ZCCHC2	54877	broad.mit.edu	37	18	60227848	60227848	+	Silent	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:60227848G>A	uc002lip.3	+	8	1521	c.1521G>A	c.(1519-1521)AAG>AAA	p.K507K	ZCCHC2_uc002lio.2_RNA|ZCCHC2_uc002liq.2_5'UTR	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	507					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2						TAATCCACAAGAAGCATACTG	0.303													47	589	---	---	---	---	PASS
SAFB2	9667	broad.mit.edu	37	19	5604651	5604651	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5604651T>C	uc002mcd.2	-	11	1714	c.1502A>G	c.(1501-1503)AAG>AGG	p.K501R		NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	501	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		TTTTTCCTTCTTCACTTCGCA	0.408													6	330	---	---	---	---	PASS
OR10H1	26539	broad.mit.edu	37	19	15918103	15918103	+	Missense_Mutation	SNP	C	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15918103C>G	uc002nbq.2	-	1	834	c.745G>C	c.(745-747)GTG>CTG	p.V249L		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGCACGACCACCACAGTGAGG	0.557													21	102	---	---	---	---	PASS
CALR3	125972	broad.mit.edu	37	19	16594841	16594841	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16594841G>T	uc002ned.2	-	5	641	c.578C>A	c.(577-579)TCC>TAC	p.S193Y	MED26_uc002nee.2_Intron	NM_145046	NP_659483	Q96L12	CALR3_HUMAN	calreticulin 3 precursor	193	4 X approximate repeats.|N-domain.|1-1.				protein folding	endoplasmic reticulum lumen	calcium ion binding|sugar binding|unfolded protein binding				0						TATGCTGCCGGATTCAATTGA	0.428													11	561	---	---	---	---	PASS
ZNF790	388536	broad.mit.edu	37	19	37314189	37314189	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37314189G>T	uc002oew.2	-	4	346	c.227C>A	c.(226-228)CCA>CAA	p.P76Q	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	76	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TCACTCACCTGGGCAAGGTCC	0.493													25	164	---	---	---	---	PASS
C19orf75	284369	broad.mit.edu	37	19	51767287	51767287	+	5'UTR	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51767287G>T	uc002pwb.1	+	2					C19orf75_uc010eov.1_RNA|C19orf75_uc010ycw.1_5'UTR	NM_173635	NP_775906	Q8N7X8	CS075_HUMAN	hypothetical protein LOC284369							integral to membrane				ovary(1)|pancreas(1)	2						GTGTAGTAAAGAGCTTCTGCT	0.493													10	166	---	---	---	---	PASS
CLDND2	125875	broad.mit.edu	37	19	51870775	51870775	+	Missense_Mutation	SNP	G	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51870775G>C	uc002pwi.1	-	3	792	c.366C>G	c.(364-366)AAC>AAG	p.N122K	ETFB_uc002pwh.2_5'Flank	NM_152353	NP_689566	Q8NHS1	CLDN2_HUMAN	claudin domain containing 2	122						integral to membrane					0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		AGAAGACGTTGTTCTTCCACG	0.582													21	89	---	---	---	---	PASS
RPL28	6158	broad.mit.edu	37	19	55899365	55899365	+	Missense_Mutation	SNP	C	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55899365C>G	uc002qkv.2	+	4	315	c.273C>G	c.(271-273)AGC>AGG	p.S91R	RPL28_uc010yga.1_Missense_Mutation_p.S91R|RPL28_uc010ygb.1_Missense_Mutation_p.S91R|RPL28_uc002qkw.1_3'UTR	NM_000991	NP_000982	P46779	RL28_HUMAN	ribosomal protein L28 isoform 2	91					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0	Breast(117;0.191)	Renal(1328;0.245)	LUSC - Lung squamous cell carcinoma(43;0.13)|BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0443)		CCACGCTCAGCAGCATCAGAC	0.622													11	69	---	---	---	---	PASS
ZNF814	730051	broad.mit.edu	37	19	58386503	58386503	+	Silent	SNP	A	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58386503A>C	uc002qqo.2	-	3	527	c.255T>G	c.(253-255)GGT>GGG	p.G85G	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	85	KRAB.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						TGGGAGACACACCTGCCATAG	0.502													5	12	---	---	---	---	PASS
PLCB4	5332	broad.mit.edu	37	20	9318701	9318701	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9318701G>T	uc002wnf.2	+	5	348	c.212G>T	c.(211-213)GGA>GTA	p.G71V	PLCB4_uc010gbw.1_Missense_Mutation_p.G71V|PLCB4_uc010gbx.2_Missense_Mutation_p.G71V|PLCB4_uc002wne.2_Missense_Mutation_p.G71V	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	71					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						ATTCGGTCGGGAGCCATACCA	0.408													34	271	---	---	---	---	PASS
C20orf103	24141	broad.mit.edu	37	20	9495509	9495509	+	Nonsense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9495509C>T	uc002wni.1	+	1	239	c.10C>T	c.(10-12)CAA>TAA	p.Q4*	C20orf103_uc010zrc.1_Nonsense_Mutation_p.Q4*	NM_012261	NP_036393	Q9UJQ1	CT103_HUMAN	chromosome 20 open reading frame 103 precursor	4						integral to membrane				upper_aerodigestive_tract(1)|lung(1)|breast(1)	3			COAD - Colon adenocarcinoma(9;0.194)			TATGGATCTCCAAGGAAGAGG	0.612													30	136	---	---	---	---	PASS
C20orf185	359710	broad.mit.edu	37	20	31659925	31659925	+	Nonsense_Mutation	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31659925G>T	uc002wym.1	+	13	1276	c.1276G>T	c.(1276-1278)GAA>TAA	p.E426*		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	426					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						GCGTTTAGAAGAATGGCTCAG	0.537													4	131	---	---	---	---	PASS
C20orf132	140699	broad.mit.edu	37	20	35769666	35769666	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35769666T>C	uc010zvu.1	-	14	1508	c.1417A>G	c.(1417-1419)ACA>GCA	p.T473A	C20orf132_uc002xgk.2_Intron|C20orf132_uc002xgm.2_Missense_Mutation_p.T473A|C20orf132_uc002xgn.2_Missense_Mutation_p.T438A	NM_152503	NP_689716	Q9H579	CT132_HUMAN	hypothetical protein LOC140699 isoform 1	348											0		Myeloproliferative disorder(115;0.00878)				GTATCAAATGTAGTCATTATA	0.378													7	690	---	---	---	---	PASS
TSPYL2	64061	broad.mit.edu	37	X	53113749	53113749	+	Nonsense_Mutation	SNP	C	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53113749C>G	uc004drw.2	+	2	962	c.830C>G	c.(829-831)TCA>TGA	p.S277*	TSPYL2_uc004drv.2_Nonsense_Mutation_p.S277*|TSPYL2_uc004drx.1_5'UTR	NM_022117	NP_071400	Q9H2G4	TSYL2_HUMAN	TSPY-like 2	277					cell cycle|chromatin modification|negative regulation of cell cycle|negative regulation of cell growth|negative regulation of DNA replication|nucleosome assembly|regulation of protein kinase activity|regulation of signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|rDNA binding				0						CCCAGAATTTCAATTTTGATC	0.483													8	359	---	---	---	---	PASS
TSPYL2	64061	broad.mit.edu	37	X	53114483	53114483	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53114483G>T	uc004drw.2	+	5	1350	c.1218G>T	c.(1216-1218)AAG>AAT	p.K406N	TSPYL2_uc004drv.2_3'UTR|TSPYL2_uc004drx.1_5'UTR	NM_022117	NP_071400	Q9H2G4	TSYL2_HUMAN	TSPY-like 2	406					cell cycle|chromatin modification|negative regulation of cell cycle|negative regulation of cell growth|negative regulation of DNA replication|nucleosome assembly|regulation of protein kinase activity|regulation of signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|rDNA binding				0						TAAAGAGAAAGAAGCAAGAAA	0.393													20	743	---	---	---	---	PASS
ALG13	79868	broad.mit.edu	37	X	110987973	110987973	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:110987973C>A	uc011msy.1	+	24	2807	c.2773C>A	c.(2773-2775)CCA>ACA	p.P925T	ALG13_uc011msx.1_Intron|ALG13_uc011msz.1_Missense_Mutation_p.P847T|ALG13_uc011mta.1_Intron|ALG13_uc011mtb.1_Intron			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	925	Pro-rich.				dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						accaccaccaccaccaccacc	0.224													13	35	---	---	---	---	PASS
NKRF	55922	broad.mit.edu	37	X	118724876	118724876	+	Missense_Mutation	SNP	T	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:118724876T>A	uc004erq.2	-	2	1165	c.512A>T	c.(511-513)CAG>CTG	p.Q171L	NKRF_uc004err.2_Missense_Mutation_p.Q171L	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	171	Active repression domain.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						AATAAAATACTGCTTCTCGGC	0.413													30	173	---	---	---	---	PASS
ACTRT1	139741	broad.mit.edu	37	X	127185128	127185128	+	Missense_Mutation	SNP	A	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:127185128A>T	uc004eum.2	-	1	1255	c.1058T>A	c.(1057-1059)TTC>TAC	p.F353Y		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	353						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						CATCTGCTTGAAACTGCTCAT	0.478													7	249	---	---	---	---	PASS
FAM45B	55855	broad.mit.edu	37	X	129629427	129629427	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:129629427C>T	uc010nrh.2	+	1	513	c.295C>T	c.(295-297)CCA>TCA	p.P99S	uc004evu.2_Intron	NM_207009	NP_996892			hypothetical protein LOC404636											skin(1)	1				all cancers(201;0.0293)		AGATTTTAACCCAGAGAAGTA	0.363													7	739	---	---	---	---	PASS
L1CAM	3897	broad.mit.edu	37	X	153129373	153129373	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153129373C>A	uc004fjb.2	-	25	3530	c.3422G>T	c.(3421-3423)TGC>TTC	p.C1141F	L1CAM_uc004fjc.2_Missense_Mutation_p.C1141F|L1CAM_uc010nuo.2_Missense_Mutation_p.C1136F	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	1141	Helical; (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTTGATGAAGCAGAGGATGAG	0.642													14	95	---	---	---	---	PASS
MECP2	4204	broad.mit.edu	37	X	153297817	153297817	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153297817G>A	uc004fjv.2	-	3	444	c.218C>T	c.(217-219)GCT>GTT	p.A73V	MECP2_uc004fjw.2_Missense_Mutation_p.A85V	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	73				PAVP -> RLC (in Ref. 10).	negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TTCCGGCACAGCCGGGGCGGA	0.652													8	93	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	11225	11225	+	RNA	SNP	G	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrM:11225G>A	uc004cov.3	+	1		c.648G>A			uc004cow.1_5'Flank|uc004cox.3_5'Flank					Homo sapiens potential LAG1 interactor mRNA, partial cds.																		ACACCCTAGTAGGCTCCCTTC	0.488													20	19	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	15639	15639	+	3'UTR	SNP	T	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrM:15639T>C	uc004coy.2	+	1					uc004coz.1_5'Flank					Homo sapiens clone 35w unknown mRNA; mitochondrial.																		ATTACTATCCATCCTCATCCT	0.458											OREG0007583	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	4	44	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	1	1061330	1061330	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1061330delA								C1orf159 (9594 upstream) : MIR200B (41154 downstream)																							CGCCCGCTGGAAAAAAATCCC	0.552													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	4536793	4536793	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:4536793delT								LOC284661 (52049 upstream) : AJAP1 (178312 downstream)																							cagaaatagatttttttttgg	0.000													4	2	---	---	---	---	
CAMTA1	23261	broad.mit.edu	37	1	6997450	6997452	+	Intron	DEL	ACT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6997450_6997452delACT	uc001aoi.2	+							NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		acttaccaccactatcatcacca	0.000													2	6	---	---	---	---	
SLC25A33	84275	broad.mit.edu	37	1	9627092	9627092	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9627092delA	uc001apw.2	+						SLC25A33_uc001apx.2_Intron	NM_032315	NP_115691	Q9BSK2	S2533_HUMAN	mitochondrial carrier protein MGC4399						transport	integral to membrane|mitochondrial inner membrane					0	all_lung(157;0.246)	all_epithelial(116;1.16e-18)|all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Breast(348;0.00191)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.01e-08)|COAD - Colon adenocarcinoma(227;1.44e-05)|Kidney(185;0.000262)|KIRC - Kidney renal clear cell carcinoma(229;0.000957)|BRCA - Breast invasive adenocarcinoma(304;0.0019)|STAD - Stomach adenocarcinoma(132;0.00355)|READ - Rectum adenocarcinoma(331;0.0419)		tctcaaaaagaaaaaaaaaag	0.144													5	3	---	---	---	---	
C1orf144	26099	broad.mit.edu	37	1	16705111	16705111	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16705111delC	uc001aym.3	+						C1orf144_uc010ocb.1_Intron|C1orf144_uc001ayi.3_Intron|C1orf144_uc001ayk.3_Intron	NM_001114600	NP_001108072	Q7Z422	CA144_HUMAN	putative MAPK activating protein PM20,PM21												0		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00475)|all_lung(284;0.00671)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(227;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;4.12e-05)|Kidney(64;0.00018)|KIRC - Kidney renal clear cell carcinoma(64;0.00267)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		AAGATCGGGGCCTTGGGAGTC	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	16870412	16870413	+	IGR	INS	-	T	T	rs150789271	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16870412_16870413insT								CROCCL2 (51216 upstream) : NBPF1 (19999 downstream)																							cagaatagtgataactaagagg	0.000													4	2	---	---	---	---	
EPHB2	2048	broad.mit.edu	37	1	23063827	23063827	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:23063827delA	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)		CTCCTTATCTAAAAAAATCAA	0.498									Hereditary_Prostate_Cancer				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	30196697	30196702	+	IGR	DEL	CAGCAT	-	-	rs72368977	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:30196697_30196702delCAGCAT								PTPRU (543382 upstream) : MATN1 (987424 downstream)																							tcaccactaccagcatcaccaacatc	0.000													4	2	---	---	---	---	
TINAGL1	64129	broad.mit.edu	37	1	32044483	32044484	+	Intron	INS	-	TC	TC			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32044483_32044484insTC	uc001bta.2	+						TINAGL1_uc001bsz.2_Intron|TINAGL1_uc010ogi.1_Intron|TINAGL1_uc010ogj.1_Intron|TINAGL1_uc010ogk.1_Intron	NM_022164	NP_071447	Q9GZM7	TINAL_HUMAN	tubulointerstitial nephritis antigen-like 1						endosome transport|immune response|proteolysis	extracellular region	cysteine-type endopeptidase activity|extracellular matrix structural constituent|polysaccharide binding|scavenger receptor activity				0		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		STAD - Stomach adenocarcinoma(196;0.0526)|READ - Rectum adenocarcinoma(331;0.145)		GAGCTGgtgtgtgtgtgtgtgt	0.297													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	32435302	32435302	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32435302delC								PTP4A2 (31314 upstream) : KHDRBS1 (44189 downstream)																							acagacaaaacaaaaaaaaga	0.000													4	2	---	---	---	---	
ZBTB8B	728116	broad.mit.edu	37	1	32930534	32930534	+	5'Flank	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32930534delG	uc001bvl.3	+						ZBTB8A_uc001bvk.2_5'Flank	NM_001145720	NP_001139192	Q8NAP8	ZBT8B_HUMAN	zinc finger and BTB domain containing 8B						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CATCCTCCGAGGGGCACCAGC	0.652													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	34921118	34921118	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34921118delT								C1orf94 (236389 upstream) : MIR552 (214082 downstream)																							CCTTTCACACTTAGCTCTTCT	0.493													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	37228120	37228121	+	IGR	DEL	AC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:37228120_37228121delAC								CSF3R (279611 upstream) : GRIK3 (33007 downstream)																							agacacgcaaacacacacacac	0.020													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	37757415	37757415	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:37757415delG								GRIK3 (257571 upstream) : ZC3H12A (182704 downstream)																							cctcacccctggggagatgtt	0.194													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	38248578	38248578	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38248578delT								EPHA10 (17754 upstream) : MANEAL (11196 downstream)																							CAACAATAGCTTTTTTTTTTA	0.323													6	3	---	---	---	---	
EBNA1BP2	10969	broad.mit.edu	37	1	43632276	43632276	+	Intron	DEL	A	-	-	rs76862196		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43632276delA	uc001cin.2	-						EBNA1BP2_uc001cio.2_Intron|EBNA1BP2_uc001cim.2_Intron|EBNA1BP2_uc010ojx.1_Intron	NM_006824	NP_006815	Q99848	EBP2_HUMAN	EBNA1 binding protein 2 isoform 2						ribosome biogenesis	membrane fraction|nucleolus	protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				gagactgtccaaaaaaaaaag	0.214													6	4	---	---	---	---	
C1orf210	149466	broad.mit.edu	37	1	43750991	43750991	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43750991delC	uc001cit.3	-							NM_182517	NP_872323	Q8IVY1	CA210_HUMAN	hypothetical protein LOC149466							integral to membrane					0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CATATACACTCCCCAACAGGC	0.532													3	3	---	---	---	---	
KLF17	128209	broad.mit.edu	37	1	44588275	44588275	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44588275delT	uc001clp.2	+						KLF17_uc009vxf.1_Intron	NM_173484	NP_775755	Q5JT82	KLF17_HUMAN	zinc finger protein 393						regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					CCGtttttggttttttttttg	0.249													25	11	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	44617374	44617374	+	IGR	DEL	A	-	-	rs803381	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44617374delA								KLF17 (16567 upstream) : DMAP1 (61751 downstream)																							CAGTGTATATATTTTTTTTTT	0.383													4	3	---	---	---	---	
EIF2B3	8891	broad.mit.edu	37	1	45413158	45413159	+	Intron	DEL	TG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45413158_45413159delTG	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)					GAAAACCGGATGTGTGTGTGTG	0.446													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	46011402	46011402	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46011402delC								PRDX1 (23793 upstream) : AKR1A1 (5096 downstream)																							atgcattctgcctgttctaca	0.109													4	2	---	---	---	---	
AGBL4	84871	broad.mit.edu	37	1	49461769	49461769	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:49461769delA	uc001cru.2	-						AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_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)		tgagggaaagaaaaaaaaata	0.000													4	2	---	---	---	---	
AGBL4	84871	broad.mit.edu	37	1	50134060	50134060	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:50134060delA	uc001cru.2	-						AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_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)		TTCATCTCAGAAAAAAAAGCA	0.294													4	2	---	---	---	---	
SSBP3	23648	broad.mit.edu	37	1	54851161	54851162	+	Intron	INS	-	AC	AC			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:54851161_54851162insAC	uc001cxe.2	-						SSBP3_uc001cxf.2_Intron|SSBP3_uc001cxg.2_Intron	NM_145716	NP_663768	Q9BWW4	SSBP3_HUMAN	single stranded DNA binding protein 3 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	single-stranded DNA binding				0						CCCAACCCCAAACACACACACA	0.460													10	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	55416472	55416473	+	IGR	INS	-	T	T	rs149277180	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55416472_55416473insT								DHCR24 (63551 upstream) : TMEM61 (29992 downstream)																							AATGTCCTCCATTACCGCAACT	0.356											OREG0013503	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	3	---	---	---	---	
DAB1	1600	broad.mit.edu	37	1	58365369	58365369	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:58365369delA	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						TGAATGGTAGAAAAAAAAAAA	0.428													5	3	---	---	---	---	
LOC729467	729467	broad.mit.edu	37	1	59609568	59609569	+	Intron	INS	-	C	C	rs139246155	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:59609568_59609569insC	uc010ooq.1	-							NR_027120				Homo sapiens HSD52 mRNA, complete cds.												0						ttcttaggcatcccgtaaataa	0.000													3	4	---	---	---	---	
CACHD1	57685	broad.mit.edu	37	1	64996879	64996879	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:64996879delT	uc001dbo.1	+						CACHD1_uc001dbp.1_Intron	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1						calcium ion transport	integral to membrane				ovary(2)	2						CCCAAAACCCTTTAAAGGAAA	0.408													4	2	---	---	---	---	
CACHD1	57685	broad.mit.edu	37	1	65097205	65097205	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65097205delC	uc001dbo.1	+						CACHD1_uc001dbp.1_Intron|CACHD1_uc001dbq.1_Intron	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1						calcium ion transport	integral to membrane				ovary(2)	2						TTAATTTGTGCCCAGGCTTTT	0.383													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	68324183	68324184	+	Intron	INS	-	TG	TG			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68324183_68324184insTG	uc001deb.1	+						uc001dec.1_Intron					Homo sapiens cDNA FLJ38762 fis, clone KIDNE2013801.																		atgtgtatgcatgtgtgtgtgt	0.198													4	2	---	---	---	---	
DDAH1	23576	broad.mit.edu	37	1	85992847	85992848	+	Intron	DEL	CT	-	-	rs142998762		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:85992847_85992848delCT	uc001dlc.2	-							NM_001134445	NP_001127917	O94760	DDAH1_HUMAN	dimethylarginine dimethylaminohydrolase 1						arginine catabolic process|citrulline metabolic process|nitric oxide mediated signal transduction		dimethylargininase activity|metal ion binding				0				all cancers(265;0.0318)|Epithelial(280;0.0657)	L-Citrulline(DB00155)	CTGCTGGAAACTCTGCCTCACT	0.421													4	5	---	---	---	---	
RPAP2	79871	broad.mit.edu	37	1	92797671	92797672	+	Intron	DEL	TT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92797671_92797672delTT	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)		ctctttagtctttttttttact	0.000													5	3	---	---	---	---	
ABCD3	5825	broad.mit.edu	37	1	94929575	94929575	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94929575delT	uc001dqn.3	+						ABCD3_uc001dqm.3_Intron|ABCD3_uc010oto.1_Intron|ABCD3_uc010otp.1_Intron|ABCD3_uc009wdr.2_Intron	NM_002858	NP_002849	P28288	ABCD3_HUMAN	ATP-binding cassette, sub-family D, member 3						peroxisomal long-chain fatty acid import|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(1)	1		all_lung(203;0.000434)|Lung NSC(277;0.0019)		all cancers(265;0.0261)|Epithelial(280;0.165)		atcacatggcttttttttatt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	101111688	101111689	+	IGR	DEL	CT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101111688_101111689delCT								GPR88 (104106 upstream) : VCAM1 (73608 downstream)																							ACCCTTGTCCCTGATTTAGTTT	0.396													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	105333420	105333421	+	IGR	DEL	GT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:105333420_105333421delGT								None (None upstream) : None (None downstream)																							TTGTGTATGCGTGTGTGTGTGT	0.312													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	106219657	106219657	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:106219657delT								None (None upstream) : None (None downstream)																							TTGCTTAGTGTTACTGACCTT	0.363													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	108763796	108763796	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:108763796delT								SLC25A24 (20822 upstream) : NBPF4 (2167 downstream)																							ttctgtctccttttttatact	0.264													3	3	---	---	---	---	
SLC22A15	55356	broad.mit.edu	37	1	116560176	116560176	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:116560176delG	uc001egb.3	+						SLC22A15_uc001ega.2_Intron	NM_018420	NP_060890	Q8IZD6	S22AF_HUMAN	solute carrier family 22, member 15						ion transport	integral to membrane	transmembrane transporter activity			large_intestine(2)	2	Lung SC(450;0.184)	all_cancers(81;3.17e-06)|all_epithelial(167;2.32e-06)|all_lung(203;9.81e-06)|Lung NSC(69;5.94e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		GCCTTTTGGTGGGTGGTTTTG	0.393													4	2	---	---	---	---	
CD2	914	broad.mit.edu	37	1	117298262	117298262	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117298262delT	uc001egu.3	+						CD2_uc010owz.1_Intron|CD2_uc010oxa.1_Intron	NM_001767	NP_001758	P06729	CD2_HUMAN	CD2 molecule precursor						blood coagulation|cell surface receptor linked signaling pathway|cell-cell adhesion|induction of apoptosis|leukocyte migration|membrane raft polarization|natural killer cell activation|positive regulation of myeloid dendritic cell activation|regulation of T cell differentiation|T cell activation	integral to plasma membrane	receptor activity			breast(1)	1	Lung SC(450;0.225)	all_cancers(81;3.15e-06)|Acute lymphoblastic leukemia(138;1.7e-08)|all_epithelial(167;8.38e-07)|all_lung(203;3.37e-06)|Lung NSC(69;2.31e-05)		Epithelial(280;6.71e-26)|OV - Ovarian serous cystadenocarcinoma(397;4.74e-24)|all cancers(265;1.93e-22)|Lung(183;0.0543)|Kidney(133;0.0813)|Colorectal(144;0.174)|KIRC - Kidney renal clear cell carcinoma(1967;0.176)|LUSC - Lung squamous cell carcinoma(189;0.189)|BRCA - Breast invasive adenocarcinoma(282;0.201)	Alefacept(DB00092)	ttaaatcagattttttttgca	0.070													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	143540722	143540722	+	IGR	DEL	A	-	-	rs66595244		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:143540722delA								None (None upstream) : LOC100286793 (106917 downstream)																							ggaagaatgtaggaaacttag	0.000													4	2	---	---	---	---	
PDE4DIP	9659	broad.mit.edu	37	1	145031856	145031857	+	Intron	DEL	GT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145031856_145031857delGT	uc001elx.3	-						NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001emh.2_Intron	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform						cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		ACATTATGAAGTGGAAAATAAA	0.257			T	PDGFRB	MPD								4	2	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	145054505	145054505	+	Intron	DEL	G	-	-	rs11296748		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145054505delG	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001emh.2_Intron			Q3BBV1	NBPFK_HUMAN	RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0						actgaagtatgCTAGCAATAT	0.174													6	3	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	145115028	145115028	+	Intron	DEL	T	-	-	rs67870201		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145115028delT	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|SEC22B_uc001eml.1_Intron			Q3BBV1	NBPFK_HUMAN	RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0						TTTACTTGCGTTTTTTTTTGT	0.284													4	2	---	---	---	---	
NBPF10	100132406	broad.mit.edu	37	1	145559919	145559919	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145559919delA	uc001emp.3	+						ANKRD35_uc010oyx.1_Intron|ANKRD35_uc001eob.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)		actccgtctcaaaaaaaaaaa	0.204													10	5	---	---	---	---	
NBPF10	100132406	broad.mit.edu	37	1	146215521	146215522	+	Intron	DEL	AC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146215521_146215522delAC	uc001emp.3	+							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)		agagagagagacagagacagag	0.292													7	6	---	---	---	---	
CHD1L	9557	broad.mit.edu	37	1	146742182	146742183	+	Intron	DEL	TT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146742182_146742183delTT	uc001epm.3	+						uc001epp.2_Intron|CHD1L_uc001epn.3_Intron|CHD1L_uc010ozo.1_Intron|CHD1L_uc009wjg.2_Intron|CHD1L_uc009wjh.2_Intron|CHD1L_uc010ozp.1_Intron|CHD1L_uc001epo.3_Intron|CHD1L_uc010ozq.1_Intron|CHD1L_uc009wji.2_Intron	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein						chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					ttttcttttcttttttttttgt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	148850031	148850033	+	IGR	DEL	TCA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:148850031_148850033delTCA								NBPF16 (91720 upstream) : LOC645166 (78253 downstream)																							tcattccatttcatcatttcatt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	149030431	149030432	+	IGR	INS	-	A	A	rs147782894		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149030431_149030432insA								LOC645166 (77377 upstream) : LOC388692 (249044 downstream)																							aagcaacagatttttttttcac	0.069													7	4	---	---	---	---	
SV2A	9900	broad.mit.edu	37	1	149879937	149879938	+	Intron	INS	-	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149879937_149879938insC	uc001etg.2	-						SV2A_uc009wlk.2_5'Flank|SV2A_uc001eth.2_Intron	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2						neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	gctcctcccttcaacagttgct	0.109													6	5	---	---	---	---	
SETDB1	9869	broad.mit.edu	37	1	150924921	150924921	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150924921delG	uc001evu.2	+						SETDB1_uc001evv.2_Intron|SETDB1_uc009wmg.1_Intron	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			attatggagtggggggaaaga	0.000													4	2	---	---	---	---	
RORC	6097	broad.mit.edu	37	1	151781978	151781979	+	Intron	INS	-	GGTGT	GGTGT	rs146390907	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151781978_151781979insGGTGT	uc001ezh.2	-						RORC_uc001ezg.2_Intron|RORC_uc010pdo.1_Intron|RORC_uc010pdp.1_Intron	NM_005060	NP_005051	P51449	RORG_HUMAN	RAR-related orphan receptor C isoform a						regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			ggtgcggagtaggtgtggttgc	0.000													4	4	---	---	---	---	
SMCP	4184	broad.mit.edu	37	1	152855136	152855137	+	Intron	DEL	CA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152855136_152855137delCA	uc001fat.2	+							NM_030663	NP_109588	P49901	MCSP_HUMAN	sperm mitochondria-associated cysteine-rich						penetration of zona pellucida|sperm motility	mitochondrial membrane					0	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			CACTTAGGTGcacacacacaca	0.371													4	2	---	---	---	---	
SCAMP3	10067	broad.mit.edu	37	1	155230706	155230706	+	Intron	DEL	T	-	-	rs111770347		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155230706delT	uc001fjs.2	-						RAG1AP1_uc010pey.1_Intron|SCAMP3_uc001fjr.2_5'Flank|SCAMP3_uc001fju.2_Intron|SCAMP3_uc001fjv.2_Intron|SCAMP3_uc001fjt.2_Intron	NM_005698	NP_005689	O14828	SCAM3_HUMAN	secretory carrier membrane protein 3 isoform 1						post-Golgi vesicle-mediated transport|protein transport	integral to membrane				ovary(3)	3	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CTTAACTGTGttttttttttt	0.209													5	7	---	---	---	---	
LMNA	4000	broad.mit.edu	37	1	156099292	156099292	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156099292delC	uc001fni.2	+						LMNA_uc001fnf.1_Intron|LMNA_uc001fng.2_Intron|LMNA_uc001fnh.2_Intron|LMNA_uc009wro.1_Intron|LMNA_uc010pgz.1_Intron|LMNA_uc001fnj.2_Intron|LMNA_uc001fnk.2_Intron	NM_170707	NP_733821	P02545	LMNA_HUMAN	lamin A/C isoform 1 precursor						cellular component disassembly involved in apoptosis|cellular response to hypoxia|establishment or maintenance of microtubule cytoskeleton polarity|muscle organ development|positive regulation of cell aging|regulation of apoptosis|regulation of cell migration	cytoplasm|lamin filament|nuclear envelope|nuclear envelope|perinuclear region of cytoplasm	protein binding|structural molecule activity|structural molecule activity			ovary(2)	2	Hepatocellular(266;0.158)					TTTCCTTCTGCCCACGCTTGG	0.473									Werner_syndrome|Hutchinson-Gilford_Progeria_Syndrome				4	2	---	---	---	---	
KIRREL	55243	broad.mit.edu	37	1	157967259	157967260	+	Intron	DEL	GT	-	-	rs72285712		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:157967259_157967260delGT	uc001frn.3	+						KIRREL_uc010pib.1_Intron	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor							integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					TCTTTGTGGGgtgtgtgtgtgt	0.366													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	159455964	159455964	+	IGR	DEL	T	-	-	rs59805947		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159455964delT								OR10J1 (45454 upstream) : OR10J5 (48906 downstream)																							aaatatctactctatgagggg	0.000													4	2	---	---	---	---	
RGS5	8490	broad.mit.edu	37	1	163122757	163122758	+	Intron	INS	-	AG	AG	rs142129808	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163122757_163122758insAG	uc001gcn.2	-						RGS5_uc009wvb.2_Intron	NM_003617	NP_003608	O15539	RGS5_HUMAN	regulator of G-protein signalling 5						negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity				0			LUSC - Lung squamous cell carcinoma(543;0.187)			TAGAACTAGACAGAGATTTACC	0.386													6	4	---	---	---	---	
GPA33	10223	broad.mit.edu	37	1	167051419	167051420	+	Intron	DEL	AG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167051419_167051420delAG	uc001gea.1	-							NM_005814	NP_005805	Q99795	GPA33_HUMAN	transmembrane glycoprotein A33 precursor							integral to plasma membrane	receptor activity				0						aatcacagacagagagagagag	0.074													4	2	---	---	---	---	
TBX19	9095	broad.mit.edu	37	1	168223470	168223470	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:168223470delG	uc001gfj.3	+							NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19						anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					tacaataaaagaaccagtatt	0.000													4	2	---	---	---	---	
FMO1	2326	broad.mit.edu	37	1	171246104	171246104	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171246104delT	uc009wvz.2	+						FMO1_uc010pme.1_Intron|FMO1_uc001ghl.2_Intron|FMO1_uc001ghm.2_Intron|FMO1_uc001ghn.2_Intron	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1						NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					aagcctcaaatttacccacaa	0.144													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	181103218	181103218	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181103218delC								IER5 (43241 upstream) : CACNA1E (349498 downstream)																							GCACTGCCTGCCCACATGCCT	0.577													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	194012645	194012645	+	IGR	DEL	A	-	-	rs34440698		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:194012645delA								CDC73 (788705 upstream) : None (None downstream)																							TTTTTTTTTGAAACTTCAACA	0.303													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	200219199	200219199	+	IGR	DEL	A	-	-	rs34723349		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200219199delA								FAM58B (35556 upstream) : ZNF281 (156227 downstream)																							CCGTGTTAGTAAAaaaaaaaa	0.284													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	200300777	200300778	+	IGR	INS	-	T	T	rs140986916	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200300777_200300778insT								FAM58B (117134 upstream) : ZNF281 (74648 downstream)																							TATGTGTGTGATTTTTTTTTCC	0.406													2	4	---	---	---	---	
KIF14	9928	broad.mit.edu	37	1	200525436	200525436	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200525436delA	uc010ppk.1	-						KIF14_uc010ppj.1_Intron	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14						microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						TATGTGGTTTAAAAAAAAACA	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	204998979	204998980	+	IGR	INS	-	G	G	rs145353696	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204998979_204998980insG								NFASC (7030 upstream) : CNTN2 (13085 downstream)																							CCCATGGATGTGGATGCGGTTA	0.550													4	2	---	---	---	---	
FAIM3	9214	broad.mit.edu	37	1	207079848	207079851	+	Intron	DEL	TGTC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207079848_207079851delTGTC	uc001hey.2	-						FAIM3_uc010prz.1_Intron|FAIM3_uc010psa.1_Intron|FAIM3_uc010psb.1_Intron	NM_005449	NP_005440	O60667	FAIM3_HUMAN	Fas apoptotic inhibitory molecule 3 isoform a						anti-apoptosis|cellular defense response	integral to membrane				central_nervous_system(1)	1	Breast(84;0.201)					TAACTTTCTTTGTCTGAAATAGAG	0.260													7	5	---	---	---	---	
LPGAT1	9926	broad.mit.edu	37	1	211938668	211938668	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211938668delT	uc001hiu.2	-						LPGAT1_uc001hiv.2_Intron	NM_014873	NP_055688	Q92604	LGAT1_HUMAN	lysophosphatidylglycerol acyltransferase 1						phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.00773)|all cancers(67;0.0765)|Epithelial(68;0.114)		ttttctgtcatttttttcact	0.104													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	218647626	218647626	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:218647626delA								TGFB2 (29667 upstream) : LYPLAL1 (699566 downstream)																							CGCTTTTATTACAGCTTTGAT	0.239													4	2	---	---	---	---	
CDC42BPA	8476	broad.mit.edu	37	1	227431702	227431703	+	Intron	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:227431702_227431703insA	uc001hqr.2	-						CDC42BPA_uc001hqs.2_Intron|CDC42BPA_uc009xes.2_Intron|CDC42BPA_uc010pvs.1_Intron	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B						actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				actcactcaccaaaaaaaaact	0.000													4	2	---	---	---	---	
COG2	22796	broad.mit.edu	37	1	230802420	230802420	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230802420delT	uc001htw.2	+						COG2_uc001htx.2_Intron|COG2_uc010pwc.1_Intron	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform						Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				GCTTCCTTAATTTTACTATGT	0.423													6	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	234485586	234485586	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:234485586delA								SLC35F3 (25324 upstream) : C1orf31 (23689 downstream)																							tgaggtccccaaaaaaagcta	0.020													4	2	---	---	---	---	
LGALS8	3964	broad.mit.edu	37	1	236709074	236709075	+	Intron	INS	-	G	G	rs140571553	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236709074_236709075insG	uc001hxz.1	+						LGALS8_uc001hxw.1_Intron|LGALS8_uc001hxy.1_Intron|LGALS8_uc009xgg.1_Intron|LGALS8_uc001hya.1_Intron|LGALS8_uc001hyb.1_Intron|LGALS8_uc001hyc.1_Intron	NM_201543	NP_963837	O00214	LEG8_HUMAN	galectin-8 isoform b							cytoplasm|extracellular space	sugar binding			ovary(1)	1	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.0253)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			GAAGGTTCCCTGAAGTTGTGGA	0.426													4	2	---	---	---	---	
RGS7	6000	broad.mit.edu	37	1	240963853	240963854	+	Intron	DEL	AC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240963853_240963854delAC	uc001hyv.2	-						RGS7_uc010pyh.1_Intron|RGS7_uc010pyj.1_Intron|RGS7_uc001hyu.2_Intron|RGS7_uc009xgn.1_Intron|RGS7_uc001hyw.2_Intron|RGS7_uc001hyt.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)			AAAAGCCACAACACACACACAC	0.396													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	246978548	246978548	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246978548delC								LOC149134 (22863 upstream) : AHCTF1 (23854 downstream)																							ATCTCTATTACCTATTCCTTG	0.443													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	1752573	1752573	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1752573delT								PXDN (4282 upstream) : MYT1L (40314 downstream)																							CGTAATTACCTTTTTGGTCAT	0.353													4	2	---	---	---	---	
NOL10	79954	broad.mit.edu	37	2	10794906	10794906	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10794906delA	uc002raq.2	-						NOL10_uc010yje.1_Intron|NOL10_uc010yjf.1_Intron|NOL10_uc002rap.2_Intron|NOL10_uc002rar.2_Intron	NM_024894	NP_079170	Q9BSC4	NOL10_HUMAN	nucleolar protein 10							nucleolus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.207)		tgacctgtccaaAAAAAAGAA	0.144													3	3	---	---	---	---	
ROCK2	9475	broad.mit.edu	37	2	11340846	11340846	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-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													9	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	12126761	12126762	+	IGR	INS	-	T	T	rs147400686	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:12126761_12126762insT								LPIN1 (159230 upstream) : TRIB2 (730236 downstream)																							attctagcttatttttatcact	0.045													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	16030449	16030450	+	IGR	INS	-	AC	AC			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:16030449_16030450insAC								DDX1 (259225 upstream) : MYCNOS (49570 downstream)																							AAGAGAGAGAGAGAGAGACATA	0.446													0	9	---	---	---	---	
WDR35	57539	broad.mit.edu	37	2	20147736	20147737	+	Intron	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20147736_20147737insT	uc002rdi.2	-						WDR35_uc002rdj.2_Intron|WDR35_uc010ext.2_Intron|WDR35_uc002rdh.2_Intron|WDR35_uc002rdk.3_Intron	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1											ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTTACTGTAAttttttttttt	0.153													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	21185591	21185591	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:21185591delA								C2orf43 (162764 upstream) : APOB (38711 downstream)																							GTCTAGCATTAAAAAAAAGAG	0.358											OREG0014484	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	2	23222014	23222015	+	IGR	INS	-	A	A	rs74518218		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:23222014_23222015insA								None (None upstream) : KLHL29 (533440 downstream)																							ATGAGATTTTGAAAAAAAAAAA	0.376													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	23599697	23599697	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:23599697delG								None (None upstream) : KLHL29 (155758 downstream)																							cagtaaaccagggtcaattgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	23672952	23672952	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:23672952delA								None (None upstream) : KLHL29 (82503 downstream)																							ATCGCCAATTAAAAAGCTCAT	0.463													4	2	---	---	---	---	
ADCY3	109	broad.mit.edu	37	2	25127007	25127010	+	Intron	DEL	AGAG	-	-	rs143906124		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25127007_25127010delAGAG	uc002rfs.3	-						ADCY3_uc010ykm.1_Intron	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3						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|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					GGAAGgagacagagagagagagaa	0.245													7	4	---	---	---	---	
ASXL2	55252	broad.mit.edu	37	2	25973783	25973784	+	Intron	INS	-	A	A	rs35728552	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25973783_25973784insA	uc002rgs.2	-						ASXL2_uc002rgt.1_Intron	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AACCCAGGCCCAAAAAATCTAA	0.470													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	34387427	34387427	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:34387427delT								MYADML (434143 upstream) : None (None downstream)																							TGCTGTGACCTGCTGCCTGAT	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	43152547	43152554	+	IGR	DEL	GAGAGAGT	-	-	rs4953693	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43152547_43152554delGAGAGAGT								HAAO (132796 upstream) : ZFP36L2 (296988 downstream)																							gagagagagagagagagTGTGTGTGGAC	0.433													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	53629667	53629668	+	IGR	DEL	AC	-	-	rs72292935		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:53629667_53629668delAC								None (None upstream) : ASB3 (267450 downstream)																							agtagcttggaccaggaaagca	0.000													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	59502083	59502084	+	IGR	INS	-	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:59502083_59502084insC								None (None upstream) : None (None downstream)																							ctgtctccccaccccccacctt	0.079													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	60837901	60837901	+	IGR	DEL	C	-	-	rs6727433	byFrequency	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:60837901delC								BCL11A (57268 upstream) : PAPOLG (145482 downstream)																							TTTTGCTGTTCTTTTTTTTTT	0.338													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	68197396	68197397	+	IGR	INS	-	C	C	rs142295920	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68197396_68197397insC								ETAA1 (559863 upstream) : C1D (71936 downstream)																							TCAGCAAAATACAAAAAAAAAA	0.243													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	68197398	68197398	+	IGR	DEL	A	-	-	rs77658412		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68197398delA								ETAA1 (559865 upstream) : C1D (71935 downstream)																							AGCAAAATACAAAAAAAAAAG	0.244													4	2	---	---	---	---	
TGFA	7039	broad.mit.edu	37	2	70693192	70693193	+	Intron	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:70693192_70693193insT	uc002sgs.3	-						TGFA_uc010fdq.2_Intron|TGFA_uc010fdr.2_Intron|TGFA_uc002sgt.3_Intron|TGFA_uc002sgu.2_Intron|TGFA_uc002sgv.2_Intron|TGFA_uc002sgw.2_Intron	NM_003236	NP_003227	P01135	TGFA_HUMAN	transforming growth factor, alpha isoform 1						activation of MAPK activity|cell proliferation|positive regulation of cell division|positive regulation of epidermal growth factor receptor activity|positive regulation of epithelial cell proliferation|positive regulation of mitosis	cell surface|extracellular space|integral to membrane|plasma membrane	epidermal growth factor receptor binding|growth factor activity|MAP kinase kinase activity|signal transducer activity			prostate(1)	1						AGTGACAGTGATTTTTTTTTAG	0.317													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	76184637	76184638	+	IGR	DEL	CT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:76184637_76184638delCT								C2orf3 (246526 upstream) : LRRTM4 (790220 downstream)																							gttaggttccctaggacacaga	0.134													4	2	---	---	---	---	
CTNNA2	1496	broad.mit.edu	37	2	80479403	80479403	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80479403delA	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						ctggattactaaaCTCTGAGG	0.169													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	84128135	84128136	+	IGR	INS	-	ACAG	ACAG	rs6745043		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:84128135_84128136insACAG								None (None upstream) : FUNDC2P2 (389670 downstream)																							cacacacacacagtcatgtgct	0.030													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	91739078	91739082	+	IGR	DEL	TCATC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91739078_91739082delTCATC								None (None upstream) : LOC654342 (66110 downstream)																							ttatttcatgtcatctcatctcatc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	91768192	91768192	+	IGR	DEL	A	-	-	rs4400638		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91768192delA								None (None upstream) : LOC654342 (37000 downstream)																							CATATACtttatttttttaag	0.134													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	91787720	91787721	+	IGR	INS	-	AA	AA	rs148708240		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91787720_91787721insAA								None (None upstream) : LOC654342 (17471 downstream)																							ATATTTTGGGCAGCCATGCTCA	0.347													5	3	---	---	---	---	
LOC654342	654342	broad.mit.edu	37	2	91809968	91809968	+	Intron	DEL	A	-	-	rs113753145		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91809968delA	uc002sts.3	-						LOC654342_uc002stt.2_Intron					Homo sapiens cDNA clone IMAGE:4801360.												0						AGACCAATATAAAAACACATT	0.269													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	96615999	96616000	+	Intron	INS	-	C	C	rs143736108	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96615999_96616000insC	uc010yug.1	-											Homo sapiens cDNA FLJ54441 complete cds, highly similar to Homo sapiens ankyrin repeat domain 36 (ANKRD36), mRNA.																		TGCCTTTAAAATTTGATGGTTA	0.351													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	100820326	100820326	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100820326delA								AFF3 (61289 upstream) : LONRF2 (69428 downstream)																							GGCTGTGGGTAAAAACTGCTG	0.433													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	102251430	102251430	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102251430delC								RFX8 (160265 upstream) : MAP4K4 (63058 downstream)																							CCTCCTCCTTCCCCAGCCTGG	0.512													4	2	---	---	---	---	
MAP4K4	9448	broad.mit.edu	37	2	102416046	102416046	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102416046delT	uc002tbg.2	+						MAP4K4_uc002tbc.2_Intron|MAP4K4_uc002tbd.2_Intron|MAP4K4_uc002tbe.2_Intron|MAP4K4_uc002tbf.2_Intron|MAP4K4_uc010yvy.1_Intron|MAP4K4_uc002tbh.2_Intron|MAP4K4_uc002tbi.2_Intron|MAP4K4_uc010yvz.1_Intron|MAP4K4_uc010fiw.1_Intron	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase						intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TGTGTGTGGGTTTtttttttt	0.239													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	103887691	103887692	+	IGR	INS	-	C	C	rs146931037	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:103887691_103887692insC								TMEM182 (453555 upstream) : None (None downstream)																							ACTCAGTGTATCTTTTTCTGTG	0.312													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	108520957	108520958	+	IGR	INS	-	T	T	rs149047114		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108520957_108520958insT								RGPD4 (11958 upstream) : SLC5A7 (82037 downstream)																							GTATAGTTAGATTTTTTTTTTT	0.337													6	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	108791689	108791689	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108791689delA								SLC5A7 (161250 upstream) : SULT1C3 (71962 downstream)																							atgggtggccaaaaatgacat	0.000													4	2	---	---	---	---	
LIMS1	3987	broad.mit.edu	37	2	109268831	109268832	+	Intron	INS	-	TG	TG			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109268831_109268832insTG	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						caagagcaaactggacatgtgg	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	112280318	112280318	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112280318delC								LOC541471 (27626 upstream) : ANAPC1 (246323 downstream)																							GGCCCCACAGCCCCCAGACTC	0.488													4	2	---	---	---	---	
ANAPC1	64682	broad.mit.edu	37	2	112592574	112592574	+	Intron	DEL	A	-	-	rs150159007		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112592574delA	uc002thi.2	-							NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						AGAGTATGTTAAAAAAAAAAA	0.229													4	3	---	---	---	---	
TTL	150465	broad.mit.edu	37	2	113278192	113278193	+	Intron	INS	-	TA	TA	rs138859384	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113278192_113278193insTA	uc002thu.2	+						TTL_uc010fkm.1_Intron	NM_153712	NP_714923	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase						protein modification process		ATP binding|tubulin-tyrosine ligase activity				0		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)		CCCGTGTATAGGCCAGATAggc	0.292			T	ETV6	ALL								2	4	---	---	---	---	
MARCO	8685	broad.mit.edu	37	2	119727461	119727461	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:119727461delT	uc002tln.1	+						MARCO_uc010yyf.1_Intron	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure						cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TAGGCACAGCTTTAGGCCACG	0.502													4	2	---	---	---	---	
CLASP1	23332	broad.mit.edu	37	2	122144921	122144921	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122144921delT	uc002tnc.2	-						CLASP1_uc010yyv.1_Intron|CLASP1_uc002tmz.2_Intron|CLASP1_uc002tna.2_Intron|CLASP1_uc010yyw.1_Intron|CLASP1_uc002tnb.2_Intron|CLASP1_uc010yyx.1_Intron|CLASP1_uc010yyy.1_Intron|CLASP1_uc010yyz.1_Intron|CLASP1_uc010yza.1_Intron|CLASP1_uc010yzb.1_Intron|CLASP1_uc010yzc.1_Intron|CLASP1_uc002tnf.2_Intron	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1						axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					CCCAGGATGGTTTTTTTTTTC	0.328													4	2	---	---	---	---	
UGGT1	56886	broad.mit.edu	37	2	128878524	128878534	+	Intron	DEL	GCGTTAGTGTA	-	-	rs113676793		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128878524_128878534delGCGTTAGTGTA	uc002tps.2	+						UGGT1_uc010fme.1_Intron|UGGT1_uc002tpr.2_Intron	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1						'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						TGTGCTACATGCGTTAGTGTAGCGTTAGTGT	0.379													4	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	132773783	132773784	+	IGR	INS	-	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:132773783_132773784insC								C2orf27B (214549 upstream) : NCRNA00164 (131380 downstream)																							atattattcagccttaaacatg	0.000													4	2	---	---	---	---	
NCKAP5	344148	broad.mit.edu	37	2	133593129	133593129	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133593129delT	uc002ttp.2	-						NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1								protein binding				0						GAATTTTTACTTTTTTTTTTT	0.303													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	136985859	136985859	+	IGR	DEL	T	-	-	rs68122582		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136985859delT								CXCR4 (110134 upstream) : THSD7B (537256 downstream)																							TGGACCCAGGTtagggtagtg	0.149													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	137287281	137287281	+	IGR	DEL	A	-	-	rs11334145		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:137287281delA								CXCR4 (411556 upstream) : THSD7B (235834 downstream)																							ggtacttgataaTCTGGGCAT	0.229													4	2	---	---	---	---	
LRP1B	53353	broad.mit.edu	37	2	142278297	142278297	+	Intron	DEL	A	-	-	rs78714149		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:142278297delA	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)		CCAAACACACAAAAAAAAGTG	0.373										TSP Lung(27;0.18)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	159578587	159578588	+	Intron	INS	-	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:159578587_159578588insC	uc002uab.1	-											Homo sapiens cDNA FLJ44380 fis, clone TRACH3035482.																		ttggggaatctccctctgactc	0.000													4	7	---	---	---	---	
TANC1	85461	broad.mit.edu	37	2	159891719	159891719	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:159891719delT	uc002uag.2	+						TANC1_uc010fol.1_Intron|TANC1_uc010zcm.1_Intron	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and							cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CTCTATGAAGTTTTTTTTTGA	0.343													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	174509810	174509810	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:174509810delA								CDCA7 (276092 upstream) : SP3 (263449 downstream)																							attgcagaacaaaaaaaaatg	0.000													3	4	---	---	---	---	
CWC22	57703	broad.mit.edu	37	2	180837743	180837744	+	Intron	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180837743_180837744insA	uc010frh.1	-						CWC22_uc002unp.2_Intron	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog							catalytic step 2 spliceosome	protein binding|RNA binding				0						ctcaaaaaaagaaaaaaaaaaa	0.079													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	181586526	181586526	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:181586526delT								CWC22 (714686 upstream) : UBE2E3 (258586 downstream)																							gtgtgttatgtttggccctca	0.119													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	201612029	201612030	+	IGR	DEL	TC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201612029_201612030delTC								AOX1 (75814 upstream) : AOX2P (23365 downstream)																							tctctctctttctctctctctc	0.317													4	2	---	---	---	---	
KLF7	8609	broad.mit.edu	37	2	208010539	208010540	+	Intron	DEL	CA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208010539_208010540delCA	uc002vbz.1	-						KLF7_uc002vca.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)		cagcacctagcacagtgtgggg	0.144													8	4	---	---	---	---	
CREB1	1385	broad.mit.edu	37	2	208422950	208422950	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208422950delC	uc002vcc.2	+						CREB1_uc010ziz.1_Intron|CREB1_uc002vcd.2_Intron|CREB1_uc010zja.1_5'Flank	NM_134442	NP_604391	P16220	CREB1_HUMAN	cAMP responsive element binding protein 1						activation of phospholipase C activity|axon guidance|innate immune response|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein dimerization activity|transcription cofactor activity		EWSR1/CREB1(42)	soft_tissue(42)|breast(1)|central_nervous_system(1)	44				LUSC - Lung squamous cell carcinoma(261;0.0768)|Epithelial(149;0.127)|Lung(261;0.145)	Adenosine monophosphate(DB00131)|Bromocriptine(DB01200)|Naloxone(DB01183)	TAGGgatcttccccccaggct	0.169			T	EWSR1	clear cell sarcoma|angiomatoid fibrous histiocytoma								4	2	---	---	---	---	
ERBB4	2066	broad.mit.edu	37	2	213091135	213091136	+	Intron	INS	-	GG	GG	rs138561912	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:213091135_213091136insGG	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)		agtaaagacatgggggggggtt	0.059										TSP Lung(8;0.080)			3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	217673457	217673457	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:217673457delA								IGFBP5 (113185 upstream) : TNP1 (50727 downstream)																							tctcacactcacCTGTACATT	0.164													4	2	---	---	---	---	
TNS1	7145	broad.mit.edu	37	2	218773279	218773279	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:218773279delA	uc002vgt.2	-						TNS1_uc002vgr.2_Intron|TNS1_uc002vgs.2_Intron|TNS1_uc010zjv.1_Intron|TNS1_uc010fvk.1_Intron|TNS1_uc002vgv.1_Intron	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin							cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		AAGGCAGGGGAATGGACAGAA	0.572													4	2	---	---	---	---	
PAX3	5077	broad.mit.edu	37	2	223146659	223146660	+	Intron	DEL	TC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:223146659_223146660delTC	uc010fwo.2	-						PAX3_uc002vmt.1_Intron|PAX3_uc002vmy.1_Intron|PAX3_uc002vmv.1_Intron|PAX3_uc002vmw.1_Intron|PAX3_uc002vmx.1_Intron	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3						apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AAACGAAAGTTCTAGAATTAAG	0.465			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	225571943	225571943	+	IGR	DEL	T	-	-	rs115641981		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225571943delT								CUL3 (121833 upstream) : DOCK10 (57864 downstream)																							acccaagaactttttacaaaa	0.000													4	2	---	---	---	---	
AGAP1	116987	broad.mit.edu	37	2	236836575	236836575	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:236836575delG	uc002vvs.2	+						AGAP1_uc002vvt.2_Intron	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1						protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						TGAGGTCTGTGGACAGATGGC	0.443													4	2	---	---	---	---	
KIF1A	547	broad.mit.edu	37	2	241755567	241755568	+	Intron	DEL	GT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241755567_241755568delGT	uc002vzy.2	-						KIF1A_uc010fzk.2_Intron|KIF1A_uc002vzz.1_Intron	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles						anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		GGGATGCAGAgtgtgtgtgtgt	0.233													4	2	---	---	---	---	
HDLBP	3069	broad.mit.edu	37	2	242167639	242167639	+	3'UTR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242167639delC	uc002waz.2	-	28					HDLBP_uc002wba.2_3'UTR|HDLBP_uc002wbb.2_3'UTR	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein						cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		GCTAGCAGCTCAGTCACCTCC	0.567													4	2	---	---	---	---	
DTYMK	1841	broad.mit.edu	37	2	242617690	242617690	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242617690delA	uc002wbz.1	-						DTYMK_uc010zpa.1_Intron|DTYMK_uc010zpb.1_Intron|DTYMK_uc002wca.1_Intron|DTYMK_uc002wcb.1_5'Flank	NM_012145	NP_036277	P23919	KTHY_HUMAN	deoxythymidylate kinase (thymidylate kinase)						cell cycle|cell proliferation|nucleobase, nucleoside and nucleotide interconversion	cytosol	ATP binding|nucleoside phosphate kinase activity|thymidylate kinase activity				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.6e-33)|all cancers(36;3.57e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.23e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0825)		attctgtctcaaaaaaaaaag	0.264													6	3	---	---	---	---	
CNTN4	152330	broad.mit.edu	37	3	2978806	2978806	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:2978806delT	uc003bpc.2	+						CNTN4_uc003bpb.1_Intron|CNTN4_uc003bpd.1_Intron|CNTN4_uc003bpe.2_Intron|CNTN4_uc003bpf.2_Intron	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor						axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		CCACCTTGGGTTTTTTGTTTG	0.323													4	2	---	---	---	---	
ATP2B2	491	broad.mit.edu	37	3	10499806	10499807	+	Intron	INS	-	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10499806_10499807insC	uc003bvt.2	-						ATP2B2_uc003bvv.2_Intron|ATP2B2_uc003bvw.2_Intron|ATP2B2_uc010hdp.2_Intron	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1						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						tgcttgaccattagctgtctgt	0.173													3	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	13836642	13836642	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:13836642delG								LOC285375 (48510 upstream) : WNT7A (23440 downstream)																							ctctgcaggtggggaaggaac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	20648474	20648474	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:20648474delA								SGOL1 (420791 upstream) : VENTXP7 (798744 downstream)																							aagaatcaggaaaaaatgaca	0.000													4	2	---	---	---	---	
ZNF385D	79750	broad.mit.edu	37	3	21819806	21819806	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:21819806delC	uc010hfb.1	-									Q9H6B1	Z385D_HUMAN	Homo sapiens cDNA: FLJ22419 fis, clone HRC08593.							nucleus	nucleic acid binding|zinc ion binding			large_intestine(2)|skin(2)|ovary(1)	5						TTATTTCTTTCCCCAACACAC	0.453													4	2	---	---	---	---	
MLH1	4292	broad.mit.edu	37	3	37082032	37082033	+	Intron	INS	-	TTTG	TTTG	rs147362928	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37082032_37082033insTTTG	uc003cgl.2	+						MLH1_uc011aye.1_Intron|MLH1_uc011ayb.1_Intron|MLH1_uc010hge.2_Intron|MLH1_uc003cgn.3_Intron|MLH1_uc011ayc.1_Intron|MLH1_uc011ayd.1_Intron|MLH1_uc003cgo.2_Intron|MLH1_uc010hgk.2_Intron|MLH1_uc010hgn.2_Intron|MLH1_uc010hgm.2_Intron|MLH1_uc010hgo.2_Intron|MLH1_uc010hgp.2_5'Flank|MLH1_uc010hgq.2_5'Flank	NM_000249	NP_000240	P40692	MLH1_HUMAN	MutL protein homolog 1						mismatch repair|somatic hypermutation of immunoglobulin genes	chiasma|MutLalpha complex|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|protein binding	p.0?(1)		large_intestine(40)|haematopoietic_and_lymphoid_tissue(8)|ovary(6)|pancreas(5)|stomach(3)|central_nervous_system(3)|endometrium(3)|breast(3)|prostate(3)|skin(2)|NS(1)	77						catgcagggGTtttgtttgttt	0.168		1	D|Mis|N|F|S		colorectal|endometrial|ovarian|CNS	colorectal|endometrial|ovarian|CNS		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	39376066	39376066	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39376066delT								CCR8 (895 upstream) : SLC25A38 (48749 downstream)																							gaagtcagacttttttttttc	0.000													4	4	---	---	---	---	
MOBP	4336	broad.mit.edu	37	3	39536802	39536806	+	Intron	DEL	TGAAT	-	-	rs72410685		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39536802_39536806delTGAAT	uc010hht.2	+						MOBP_uc003cju.2_Intron|MOBP_uc003cjv.2_Intron|MOBP_uc003cjw.2_Intron	NM_182935	NP_891980	Q13875	MOBP_HUMAN	myelin-associated oligodendrocyte basic protein						nervous system development	nucleolus|perinuclear region of cytoplasm|soluble fraction				ovary(1)|central_nervous_system(1)	2				KIRC - Kidney renal clear cell carcinoma(284;0.082)|Kidney(284;0.0998)		taataactgatgaattgaagaagaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	40473865	40473866	+	Intron	DEL	GA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40473865_40473866delGA	uc003cke.3	-											Homo sapiens hypothetical protein FLJ36665, mRNA (cDNA clone IMAGE:5299018).																		gagagagagtgagagagagaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	40920135	40920135	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40920135delT								ZNF621 (339092 upstream) : CTNNB1 (316266 downstream)																							TTTCCGATCATTTTTTTTTTC	0.413													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	46095394	46095395	+	IGR	INS	-	CT	CT	rs144592044	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46095394_46095395insCT								XCR1 (26415 upstream) : CCR3 (109701 downstream)																							gctcccagtagctctttagggc	0.000													2	4	---	---	---	---	
PRKAR2A	5576	broad.mit.edu	37	3	48831093	48831093	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48831093delT	uc010hki.1	-						PRKAR2A_uc003cux.1_Intron|PRKAR2A_uc003cuy.1_Intron	NM_004157	NP_004148	P13861	KAP2_HUMAN	cAMP-dependent protein kinase, regulatory						activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|membrane fraction	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000176)|Kidney(197;0.00246)|KIRC - Kidney renal clear cell carcinoma(197;0.00261)		aaccagctaatttttttttcc	0.025													4	2	---	---	---	---	
TLR9	54106	broad.mit.edu	37	3	52260882	52260882	+	5'Flank	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52260882delC	uc003dda.1	-						TLR9_uc003ddb.2_Intron|TLR9_uc003ddc.1_Intron	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor						defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	ttacaaacctcccaccccaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	64303484	64303484	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:64303484delA								PRICKLE2 (92353 upstream) : ADAMTS9 (197849 downstream)																							TCCCAGGATCAAAAGGGCGGA	0.522													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	68764424	68764424	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:68764424delA								FAM19A1 (169655 upstream) : FAM19A4 (16493 downstream)																							AAACAGCTCTAATATTGCAAA	0.333													4	2	---	---	---	---	
SHQ1	55164	broad.mit.edu	37	3	72858509	72858510	+	Intron	DEL	GT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:72858509_72858510delGT	uc003dpf.2	-						SHQ1_uc010hod.2_Intron	NM_018130	NP_060600	Q6PI26	SHQ1_HUMAN	SHQ1 homolog						ribonucleoprotein complex assembly	cytosol|nucleoplasm	protein binding			ovary(2)|large_intestine(1)	3		Prostate(10;0.00482)|Lung NSC(201;0.0339)|Myeloproliferative disorder(1037;0.204)		BRCA - Breast invasive adenocarcinoma(55;9.68e-05)|Epithelial(33;0.000563)|LUSC - Lung squamous cell carcinoma(21;0.00229)|Lung(16;0.00688)|KIRC - Kidney renal clear cell carcinoma(39;0.018)|Kidney(39;0.0213)		aaaatctaaagtgatagaaaaa	0.094													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	75226427	75226427	+	IGR	DEL	G	-	-	rs113505457		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75226427delG								CNTN3 (656084 upstream) : FAM86D (244278 downstream)																							ctgtagaagtggggggggtcc	0.015													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	75737316	75737316	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75737316delA								MIR1324 (57307 upstream) : ZNF717 (21478 downstream)																							gtagtcacttaaaaaatgttt	0.159													4	2	---	---	---	---	
ZNF717	100131827	broad.mit.edu	37	3	75788376	75788377	+	Frame_Shift_Ins	INS	-	TT	TT	rs76943640		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75788376_75788377insTT	uc011bgi.1	-	5	720_721	c.397_398insAA	c.(397-399)ACAfs	p.T133fs	ZNF717_uc003dpw.3_Intron	NM_001128223	NP_001121695	C9JSV9	C9JSV9_HUMAN	zinc finger protein 717	133					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						CAAATTAAATGTTTTTCCTAAT	0.347													6	3	---	---	---	---	
CD47	961	broad.mit.edu	37	3	107805103	107805103	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:107805103delA	uc003dwt.1	-						CD47_uc003dwu.1_Intron|CD47_uc003dwv.1_Intron|CD47_uc003dww.1_Intron	NM_001777	NP_001768	Q08722	CD47_HUMAN	CD47 antigen isoform 1 precursor						blood coagulation|cell adhesion|cell junction assembly|integrin-mediated signaling pathway|leukocyte migration|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to plasma membrane	protein binding|thrombospondin receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(3;0.0191)|Epithelial(53;0.118)			TAATTTCAttaaaaaaaaaac	0.149													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	108866936	108866936	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108866936delA	uc003dxm.2	+											Homo sapiens cDNA: FLJ22763 fis, clone KAIA0963.																		CAGTGGTGACAAAGGGCCAAG	0.488													4	2	---	---	---	---	
GPR156	165829	broad.mit.edu	37	3	119898976	119898976	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119898976delT	uc011bjf.1	-						GPR156_uc011bjg.1_Intron	NM_153002	NP_694547	Q8NFN8	GP156_HUMAN	G protein-coupled receptor 156							integral to membrane|plasma membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.19)		GTAATGAGGATTTGTGATAGA	0.428													4	2	---	---	---	---	
NPHP3	27031	broad.mit.edu	37	3	132438748	132438749	+	Intron	DEL	AT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:132438748_132438749delAT	uc003epe.1	-						NCRNA00119_uc003epg.1_5'Flank|NPHP3_uc003epf.1_Intron|NCRNA00119_uc010htu.1_5'Flank	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3						maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						atatatatacatatatatatat	0.248													25	28	---	---	---	---	
TM4SF1	4071	broad.mit.edu	37	3	149092997	149092998	+	Intron	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:149092997_149092998insA	uc003exb.1	-						TM4SF1_uc003exc.1_Intron	NM_014220	NP_055035	P30408	T4S1_HUMAN	transmembrane 4 superfamily member 1							integral to plasma membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			gtctctgggggaaaaaaaaaga	0.163													6	4	---	---	---	---	
MED12L	116931	broad.mit.edu	37	3	151140607	151140608	+	Intron	INS	-	T	T	rs34923048		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151140607_151140608insT	uc003eyp.2	+						MED12L_uc011bnz.1_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)			TGATTCATTGCTTTTTTTTTTT	0.287													8	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	159883494	159883494	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:159883494delT	uc003fcw.1	-											Homo sapiens cDNA FLJ39842 fis, clone SPLEN2014293.																		aatgtgagagtttacacaaca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	163411379	163411380	+	IGR	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:163411379_163411380insT								None (None upstream) : MIR1263 (477879 downstream)																							ataaagacaagtttttttttct	0.094													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	168360584	168360584	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:168360584delT								MIR551B (90847 upstream) : C3orf50 (167000 downstream)																							cacttctaactttttttttga	0.000													4	2	---	---	---	---	
LRRC31	79782	broad.mit.edu	37	3	169558331	169558331	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169558331delT	uc003fgc.1	-						LRRC31_uc010hwp.1_Intron	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31											ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			AACCCAATAATTTTTTTTTGT	0.358													4	2	---	---	---	---	
TNIK	23043	broad.mit.edu	37	3	170799860	170799860	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170799860delT	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|TNIK_uc003fhg.2_Intron|TNIK_uc003fhp.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)			GAGAGACTTCTTTTTGGAGGT	0.413													4	2	---	---	---	---	
TNIK	23043	broad.mit.edu	37	3	171178586	171178586	+	5'Flank	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171178586delA	uc003fhh.2	-						TNIK_uc003fhi.2_5'Flank|TNIK_uc003fhj.2_5'Flank|TNIK_uc003fhk.2_5'Flank|TNIK_uc003fhl.2_5'Flank|TNIK_uc003fhm.2_5'Flank|TNIK_uc003fhn.2_5'Flank|TNIK_uc003fho.2_5'Flank|TNIK_uc003fhq.2_5'Flank	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)			AAGCCGGAGGAAAAAAAAGCG	0.537											OREG0015923	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	3	---	---	---	---	
NAALADL2	254827	broad.mit.edu	37	3	175185159	175185166	+	Intron	DEL	ACCTTCAA	-	-	rs76733066		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:175185159_175185166delACCTTCAA	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)		ACTACGTATGACCTTCAAATATCTTACC	0.351													5	4	---	---	---	---	
NAALADL2	254827	broad.mit.edu	37	3	175463953	175463954	+	Intron	INS	-	T	T	rs150272211	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:175463953_175463954insT	uc003fit.2	+							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)		TGACTTTTTTCTTTTTTTTTTC	0.351													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	176577026	176577026	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176577026delC								None (None upstream) : TBL1XR1 (161517 downstream)																							ctcccaaatacccactgctga	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	177410096	177410096	+	IGR	DEL	G	-	-	rs76713587		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:177410096delG								TBL1XR1 (495048 upstream) : KCNMB2 (844128 downstream)																							TGGGCAGCTAGGTGAGGTGTT	0.109													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	190081854	190081855	+	IGR	INS	-	T	T	rs146086603	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190081854_190081855insT								CLDN1 (41639 upstream) : CLDN16 (23986 downstream)																							ggtcctttttattttttttgga	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	190510105	190510105	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190510105delA								IL1RAP (134262 upstream) : LOC647309 (60421 downstream)																							GGAGTGGAATAAGGATGCAGT	0.129													4	2	---	---	---	---	
C3orf59	151963	broad.mit.edu	37	3	192607724	192607724	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:192607724delA	uc011bsp.1	-							NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963												0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		GTCAGTTAGGAAAAAAAAAAT	0.363													4	2	---	---	---	---	
LRCH3	84859	broad.mit.edu	37	3	197597953	197597953	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197597953delT	uc011bul.1	+						LRCH3_uc003fyj.1_Intron|LRCH3_uc011bum.1_Intron|LRCH3_uc011bun.1_Intron|LRCH3_uc003fyk.2_Intron	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)							extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		AGAATCTAGGTTTTTTTTTTT	0.303													4	3	---	---	---	---	
FAM157A	728262	broad.mit.edu	37	3	197880887	197880887	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197880887delT	uc011bup.1	+							NM_001145248	NP_001138720	C9JC47	F157A_HUMAN	family with sequence similarity 157, member A												0						aaaacgtgggtttttttttgt	0.184													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	21309	21310	+	IGR	DEL	AT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:21309_21310delAT								None (None upstream) : ZNF595 (31917 downstream)																							GTAGTAACACATATGTGTAAAC	0.302													7	4	---	---	---	---	
EVC2	132884	broad.mit.edu	37	4	5612516	5612517	+	Intron	INS	-	TT	TT			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5612516_5612517insTT	uc003gij.2	-						EVC2_uc011bwb.1_Intron|EVC2_uc003gik.2_Intron	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin							integral to membrane				large_intestine(3)|ovary(2)	5						CTCCtttttccttttctttttt	0.421													4	2	---	---	---	---	
EVC	2121	broad.mit.edu	37	4	5751780	5751780	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5751780delT	uc003gil.1	+						EVC_uc003gim.1_Intron|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein						muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				acacatggccttttttttctg	0.090													4	2	---	---	---	---	
WFS1	7466	broad.mit.edu	37	4	6296207	6296207	+	Intron	DEL	A	-	-	rs5855907		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6296207delA	uc003giy.2	+						WFS1_uc003gix.2_Intron|WFS1_uc003giz.2_Intron	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin						endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		TGGAGGTGTCAGCAGGCACAT	0.567													3	3	---	---	---	---	
SORCS2	57537	broad.mit.edu	37	4	7641152	7641153	+	Intron	DEL	TA	-	-	rs35936150		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7641152_7641153delTA	uc003gkb.3	+						SORCS2_uc011bwi.1_Intron	NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor							integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						tgtgtgtgtgtatgcacacttg	0.129													2	4	---	---	---	---	
AFAP1	60312	broad.mit.edu	37	4	7811103	7811103	+	Intron	DEL	T	-	-	rs112743348		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7811103delT	uc003gkg.1	-						AFAP1_uc011bwk.1_Intron	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1							actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						TAAAGGGAAATTTTTTTTTTT	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	11204924	11204924	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:11204924delT								CLNK (518538 upstream) : MIR572 (165527 downstream)																							CCCACACAGGTTTTTTTTAGT	0.428													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	12219682	12219682	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:12219682delT								HS3ST1 (789145 upstream) : None (None downstream)																							TAACGTTTGATTTTTTTTTTC	0.383													5	3	---	---	---	---	
GBA3	57733	broad.mit.edu	37	4	22694884	22694885	+	Intron	INS	-	TCTT	TCTT			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:22694884_22694885insTCTT	uc003gqp.3	+						GBA3_uc010iep.2_Intron	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a						glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						ATTCTCTTGTCTCTTTAGGCAC	0.431													6	4	---	---	---	---	
GBA3	57733	broad.mit.edu	37	4	22737260	22737260	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:22737260delG	uc003gqp.3	+						GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Intron	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a						glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						GTCATGGCCAGGGGGAATGTT	0.448													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	23159500	23159501	+	IGR	DEL	AA	-	-	rs77636837		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:23159500_23159501delAA								GBA3 (338309 upstream) : PPARGC1A (634144 downstream)																							aaagtccaggaaaaaaaaaaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	23365531	23365531	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:23365531delT								GBA3 (544340 upstream) : PPARGC1A (428114 downstream)																							ttggtaaagatgagatcactg	0.104													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	24408219	24408219	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:24408219delT								PPARGC1A (516519 upstream) : MIR573 (113596 downstream)																							CATCTCTCCCTTTCAAACATT	0.428													4	2	---	---	---	---	
STIM2	57620	broad.mit.edu	37	4	27019137	27019137	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:27019137delT	uc003gsh.3	+						STIM2_uc003gsg.3_Intron|STIM2_uc010iex.2_Intron|STIM2_uc010iey.2_Intron	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2						activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				TTTAAACCTGTTTTTTTTTTG	0.299													6	3	---	---	---	---	
PDS5A	23244	broad.mit.edu	37	4	39847762	39847763	+	Intron	DEL	AT	-	-	rs33946376		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39847762_39847763delAT	uc003guv.3	-						PDS5A_uc010ifo.2_Intron	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog						cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						AAGCACACACATGTTTTCATAC	0.277													5	3	---	---	---	---	
RBM47	54502	broad.mit.edu	37	4	40527682	40527683	+	Intron	INS	-	A	A	rs138095470	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40527682_40527683insA	uc003gvc.2	-						RBM47_uc003gve.2_Intron|RBM47_uc011bys.1_Intron	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a							nucleus	nucleotide binding|RNA binding			breast(3)	3						ATAAATAGGGGAAAAAATGCAA	0.406													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	49535576	49535576	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49535576delT								CWH43 (471483 upstream) : None (None downstream)																							ATGCCAtttctttttcttttc	0.194													4	2	---	---	---	---	
EXOC1	55763	broad.mit.edu	37	4	56726881	56726881	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:56726881delA	uc003hbe.1	+						EXOC1_uc003hbf.1_Intron|EXOC1_uc003hbg.1_Intron	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1						exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					TAAACTAGAGAAAAATTACTT	0.224													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	58801468	58801468	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:58801468delT								IGFBP7 (824929 upstream) : None (None downstream)																							cccttcgcccttttttttagt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	65299037	65299038	+	IGR	INS	-	A	A	rs151321734	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:65299037_65299038insA								TECRL (23859 upstream) : EPHA5 (886244 downstream)																							ATTTAGGGGCTGGGGAGGGGGA	0.470													3	3	---	---	---	---	
SULT1B1	27284	broad.mit.edu	37	4	70623303	70623304	+	Intron	INS	-	AC	AC	rs141561191	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70623303_70623304insAC	uc003hen.2	-							NM_014465	NP_055280	O43704	ST1B1_HUMAN	sulfotransferase family, cytosolic, 1B, member						3'-phosphoadenosine 5'-phosphosulfate metabolic process|cellular biogenic amine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|thyroid hormone metabolic process|xenobiotic metabolic process	cytosol					0						TACCCCCATCTACACACACACA	0.332													3	3	---	---	---	---	
MTHFD2L	441024	broad.mit.edu	37	4	75124107	75124108	+	Intron	DEL	AC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:75124107_75124108delAC	uc011cbk.1	+						MTHFD2L_uc003hhu.2_Intron	NM_001144978	NP_001138450	Q9H903	MTD2L_HUMAN	methylenetetrahydrofolate dehydrogenase 2-like						folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process		binding|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NAD+) activity			ovary(1)|central_nervous_system(1)	2			all cancers(17;0.0101)|Lung(101;0.196)			TAGGCACATAacacacacacac	0.040													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	105423307	105423307	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:105423307delT	uc003hxh.1	+											Homo sapiens cDNA FLJ37242 fis, clone BRAMY2004335.																		CATTTATTGCTTTTTTTTTTC	0.328													3	3	---	---	---	---	
LEF1	51176	broad.mit.edu	37	4	109000381	109000382	+	Intron	INS	-	C	C	rs149035290	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109000381_109000382insC	uc003hyt.1	-						LEF1_uc011cfj.1_Intron|LEF1_uc011cfk.1_Intron|LEF1_uc003hyu.1_Intron|LEF1_uc003hyv.1_Intron|LEF1_uc010imb.1_Intron|LEF1_uc010ima.1_5'Flank|LEF1_uc003hyw.1_Intron	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1						canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		CTGAAGAGTCTCGAATGCCTAT	0.421													7	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	115188436	115188437	+	IGR	DEL	AA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:115188436_115188437delAA								ARSJ (287558 upstream) : UGT8 (331174 downstream)																							AAAATTCAACAAAAAAAGAGAG	0.381													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	129592487	129592487	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129592487delT								PGRMC2 (383539 upstream) : PHF17 (138292 downstream)																							TTTGGCTTCATTTTTGAAATG	0.348													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	138321176	138321180	+	IGR	DEL	CACAT	-	-	rs144384378		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:138321176_138321180delCACAT								None (None upstream) : PCDH18 (118896 downstream)																							AGTCTCCAAGCACATCATGGAGTGG	0.390													4	2	---	---	---	---	
IL15	3600	broad.mit.edu	37	4	142561735	142561735	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:142561735delA	uc003iis.2	+						IL15_uc003iit.2_Intron|IL15_uc010iol.2_Intron|IL15_uc003iiu.2_Intron	NM_000585	NP_000576	P40933	IL15_HUMAN	interleukin 15 preproprotein						cell-cell signaling|immune response|positive regulation of interleukin-17 production	endosome|extracellular space|Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	cytokine activity|cytokine receptor binding|signal transducer activity				0	all_hematologic(180;0.158)					TTAAACAAACAAAAAAAAAAG	0.328													2	5	---	---	---	---	
USP38	84640	broad.mit.edu	37	4	144130979	144130980	+	Intron	INS	-	T	T	rs148666231	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:144130979_144130980insT	uc003ijb.2	+						USP38_uc003ija.3_Intron|USP38_uc003ijc.2_Intron	NM_032557	NP_115946	Q8NB14	UBP38_HUMAN	ubiquitin specific peptidase 38						ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_hematologic(180;0.158)					AAATATCTAGATTTTTTTTATT	0.292													7	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	145455216	145455216	+	IGR	DEL	A	-	-	rs71590460		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:145455216delA								GYPA (393312 upstream) : HHIP (111957 downstream)																							aaagatatacaaaaaaaacct	0.134													2	4	---	---	---	---	
C4orf45	152940	broad.mit.edu	37	4	160001697	160001697	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160001697delA	uc010iqt.1	-									Q96LM5	CD045_HUMAN	Homo sapiens cDNA FLJ25371 fis, clone TST01885.												0						GCTAATTCATAAATGGGCAGT	0.269													4	2	---	---	---	---	
MARCH1	55016	broad.mit.edu	37	4	164574997	164574998	+	Intron	DEL	TG	-	-	rs145719431		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164574997_164574998delTG	uc003iqs.1	-							NM_017923	NP_060393	Q8TCQ1	MARH1_HUMAN	membrane-associated RING-CH protein I						antigen processing and presentation of peptide antigen via MHC class II|immune response	cytoplasmic vesicle membrane|early endosome membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|plasma membrane	MHC protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				atgatgggtatgtgtagttgga	0.000													3	4	---	---	---	---	
GALNTL6	442117	broad.mit.edu	37	4	172961086	172961086	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:172961086delA	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						ACTTCAGGGCAAAAAAAAAAT	0.259													4	2	---	---	---	---	
LOC285501	285501	broad.mit.edu	37	4	178703009	178703009	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:178703009delT	uc010iru.2	+							NR_028342				Homo sapiens cDNA clone IMAGE:4828874.												0		all_lung(41;6.03e-08)|Lung NSC(41;4.26e-07)|Breast(14;0.00066)|Melanoma(52;0.00168)|Prostate(90;0.0129)|all_hematologic(60;0.0202)|Renal(120;0.0246)|Colorectal(36;0.0508)|Hepatocellular(41;0.236)		all cancers(43;9.24e-25)|Epithelial(43;6.28e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.29e-10)|LUSC - Lung squamous cell carcinoma(1;2.61e-05)|Lung(1;3.22e-05)|GBM - Glioblastoma multiforme(59;0.000185)|Colorectal(24;0.000244)|STAD - Stomach adenocarcinoma(60;0.000777)|COAD - Colon adenocarcinoma(29;0.000884)		cgtccagccctttttttcttc	0.000													4	2	---	---	---	---	
TRIML1	339976	broad.mit.edu	37	4	189063815	189063815	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:189063815delA	uc003izm.1	+						TRIML1_uc003izn.1_5'Flank	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1						multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		AGAGAGAGAGAAAAAAAAAAA	0.353													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190617065	190617066	+	IGR	INS	-	CTG	CTG	rs146545425	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190617065_190617066insCTG								None (None upstream) : FRG1 (244908 downstream)																							gtgctaagcccactgcccgggg	0.000													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	2159516	2159516	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:2159516delA								IRX4 (276636 upstream) : IRX2 (586765 downstream)																							ATTTCATCTGAAAGTGGAACC	0.378													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	17670209	17670209	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:17670209delA								BASP1 (393274 upstream) : None (None downstream)																							GAAAGAAGAGAAAAAAAAAAC	0.458													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	18014340	18014341	+	IGR	INS	-	TG	TG	rs144197659	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:18014340_18014341insTG								BASP1 (737405 upstream) : None (None downstream)																							gtatgtgtgtatgtgtgtgtgt	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	28010418	28010418	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:28010418delT								CDH9 (971729 upstream) : None (None downstream)																							agtttgtgggtttttttccat	0.114													4	2	---	---	---	---	
SPEF2	79925	broad.mit.edu	37	5	35783756	35783756	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:35783756delA	uc003jjo.2	+						SPEF2_uc003jjp.1_Intron|SPEF2_uc003jjr.2_Intron	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GAGTGCTTCCAAAAAAATGTA	0.353													4	2	---	---	---	---	
GDNF	2668	broad.mit.edu	37	5	37823729	37823730	+	Intron	INS	-	TC	TC	rs144493074	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37823729_37823730insTC	uc011cpi.1	-						GDNF_uc011cpc.1_Intron|GDNF_uc011cpd.1_Intron|GDNF_uc011cpe.1_Intron|GDNF_uc011cpf.1_Intron|GDNF_uc011cpg.1_Intron|GDNF_uc011cph.1_Intron	NM_000514	NP_000505	P39905	GDNF_HUMAN	glial cell derived neurotrophic factor isoform 1						adult locomotory behavior|anti-apoptosis|axon guidance|branching involved in ureteric bud morphogenesis|enteric nervous system development|mRNA stabilization|negative regulation of neuron apoptosis|neural crest cell migration|peristalsis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of dopamine secretion|positive regulation of monooxygenase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|postganglionic parasympathetic nervous system development|regulation of dopamine uptake|signal transduction|sympathetic nervous system development	extracellular region	growth factor activity|protein homodimerization activity				0	all_lung(31;0.00118)					GAGAGGCCCCATCTCCGGAAGC	0.426													3	4	---	---	---	---	
SLC38A9	153129	broad.mit.edu	37	5	54929880	54929880	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:54929880delT	uc003jqf.2	-						SLC38A9_uc003jqd.2_Intron|SLC38A9_uc010ivx.2_Intron|SLC38A9_uc003jqe.2_Intron|SLC38A9_uc010ivy.2_Intron	NM_173514	NP_775785	Q8NBW4	S38A9_HUMAN	solute carrier family 38, member 9						amino acid transport|sodium ion transport	integral to membrane					0		Lung NSC(810;0.00122)|Prostate(74;0.0376)|Breast(144;0.181)				ttgttaagtattttttcaatg	0.070													4	2	---	---	---	---	
PART1	25859	broad.mit.edu	37	5	59789042	59789042	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:59789042delT	uc003jsg.2	+							NR_024617				Homo sapiens PART-1 mRNA, complete cds.												0						TGGTACAAAGTTTAGACTAGT	0.383													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	62123689	62123690	+	IGR	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:62123689_62123690insA								ISCA1P1 (50519 upstream) : None (None downstream)																							cctccaccagcaaaaaaatgga	0.000													4	2	---	---	---	---	
ARSB	411	broad.mit.edu	37	5	78126061	78126062	+	Intron	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:78126061_78126062insA	uc003kfq.2	-						ARSB_uc003kfr.3_Intron	NM_000046	NP_000037	P15848	ARSB_HUMAN	arylsulfatase B isoform 1 precursor						lysosomal transport|lysosome organization	lysosome	arylsulfatase activity|metal ion binding|N-acetylgalactosamine-4-sulfatase activity			upper_aerodigestive_tract(1)	1		all_lung(232;0.000637)|Lung NSC(167;0.00173)|Ovarian(174;0.0105)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;4.24e-44)|Epithelial(54;3.12e-39)|all cancers(79;3.02e-34)		TAACCCTGGGGAAAAAAAAACA	0.421													4	2	---	---	---	---	
SSBP2	23635	broad.mit.edu	37	5	80733496	80733496	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80733496delT	uc003kho.2	-						RNU5E_uc011cto.1_Intron|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)		TTCCCAATCGTTTTTTTTTTA	0.289													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	92716963	92716964	+	IGR	DEL	TG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:92716963_92716964delTG								None (None upstream) : FLJ42709 (28101 downstream)																							AAAGTAAGACTGTTAAAGTGCA	0.287													4	2	---	---	---	---	
LNPEP	4012	broad.mit.edu	37	5	96358341	96358341	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96358341delT	uc003kmv.1	+						LNPEP_uc003kmw.1_Intron	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1						cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		CAAACAAGACttttttttttt	0.184													8	4	---	---	---	---	
PAM	5066	broad.mit.edu	37	5	102310308	102310308	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:102310308delT	uc003knw.2	+						PAM_uc003kns.2_Intron|PAM_uc003knt.2_Intron|PAM_uc003knu.2_Intron|PAM_uc003knv.2_Intron|PAM_uc011cuz.1_Intron|PAM_uc003knx.1_Intron|PAM_uc003kny.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)	TCTTTGAAGATTTTTTTTTGT	0.303													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	108830397	108830397	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:108830397delT								PJA2 (84722 upstream) : MAN2A1 (194759 downstream)																							TCTCCCCAACttttttttgag	0.179													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	113640687	113640687	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:113640687delT								YTHDC2 (709708 upstream) : KCNN2 (57329 downstream)																							agattgctgattttttttaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	115965051	115965051	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:115965051delA								SEMA6A (54500 upstream) : None (None downstream)																							atgcttactgaatgtcgctca	0.000													4	2	---	---	---	---	
SNX2	6643	broad.mit.edu	37	5	122143747	122143748	+	Intron	INS	-	T	T	rs141252349	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122143747_122143748insT	uc003kte.2	+						SNX2_uc011cwn.1_Intron	NM_003100	NP_003091	O60749	SNX2_HUMAN	sorting nexin 2						cell communication|endocytosis|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding|protein transporter activity			kidney(1)	1		all_cancers(142;1.14e-44)|all_lung(232;1.03e-13)|Lung NSC(810;2.5e-13)|Breast(839;0.000812)|Myeloproliferative disorder(839;0.0122)|Prostate(80;0.0235)|all_hematologic(541;0.0592)|all_neural(839;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	all cancers(49;2.13e-24)|Epithelial(69;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(64;5.6e-11)|BRCA - Breast invasive adenocarcinoma(61;0.00013)|GBM - Glioblastoma multiforme(465;0.000357)|COAD - Colon adenocarcinoma(49;0.000887)|Lung(113;0.0109)		AACTATAAACATTTTATCTGTT	0.282													8	8	---	---	---	---	
MARCH3	115123	broad.mit.edu	37	5	126263494	126263494	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126263494delT	uc003kuf.2	-						MARCH3_uc011cxc.1_Intron	NM_178450	NP_848545	Q86UD3	MARH3_HUMAN	membrane-associated ring finger (C3HC4) 3						endocytosis	cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosome	ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.074)|OV - Ovarian serous cystadenocarcinoma(64;0.0793)		TGTTTGTTTGTTTTTTTTTGT	0.413													4	3	---	---	---	---	
SLC27A6	28965	broad.mit.edu	37	5	128364360	128364361	+	Intron	INS	-	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:128364360_128364361insG	uc003kuy.2	+						SLC27A6_uc003kuz.2_Intron	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid						long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		TATTTTTTTTTTTTTTTAGCAA	0.347													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	131619927	131619927	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131619927delC	uc003kwm.3	-											Homo sapiens cDNA clone IMAGE:5207811.																		ggacaagacaccttctgttgt	0.000													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	132133944	132133944	+	IGR	DEL	C	-	-	rs11295093		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132133944delC								SEPT8 (20383 upstream) : ANKRD43 (15089 downstream)																							caatcctcatccctggtctgt	0.050													6	4	---	---	---	---	
CDX1	1044	broad.mit.edu	37	5	149558414	149558414	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149558414delT	uc003lrq.2	+							NM_001804	NP_001795	P47902	CDX1_HUMAN	caudal type homeobox 1							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			tctgtcttgctttttttttca	0.000													3	4	---	---	---	---	
ANXA6	309	broad.mit.edu	37	5	150504098	150504107	+	Intron	DEL	GAGAGAGAGA	-	-	rs72392693		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150504098_150504107delGAGAGAGAGA	uc003ltl.1	-						ANXA6_uc011dcp.1_Intron|ANXA6_uc003ltm.1_Intron|ANXA6_uc003ltn.1_Intron|ANXA6_uc003lto.1_Intron	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1							melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CACGAGAGCTgagagagagagagagagaga	0.429													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	155118181	155118182	+	IGR	INS	-	GA	GA			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:155118181_155118182insGA								KIF4B (720496 upstream) : SGCD (16881 downstream)																							ggcctgcctCTGAGAGAGAGAG	0.079													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	166186248	166186248	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:166186248delA								None (None upstream) : ODZ2 (525595 downstream)																							actccctattaaaaaaaaaCA	0.124													4	2	---	---	---	---	
SLIT3	6586	broad.mit.edu	37	5	168380195	168380196	+	Intron	INS	-	GA	GA			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:168380195_168380196insGA	uc003mab.2	-						SLIT3_uc010jjg.2_Intron|SLIT3_uc010jji.2_Intron	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor						apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			gtttggtcatggagagagattc	0.193													4	2	---	---	---	---	
DOCK2	1794	broad.mit.edu	37	5	169188872	169188873	+	Intron	INS	-	T	T	rs262853	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169188872_169188873insT	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)			GTTTAATGAGGTTTTTTTTTCC	0.322													4	2	---	---	---	---	
KCNIP1	30820	broad.mit.edu	37	5	169817156	169817157	+	Intron	INS	-	A	A	rs148274627	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169817156_169817157insA	uc003map.2	+						KCNMB1_uc003maq.1_5'Flank|KCNMB1_uc003mar.2_5'Flank	NM_001034838	NP_001030010	Q9NZI2	KCIP1_HUMAN	Kv channel interacting protein 1 isoform 3						detection of calcium ion|signal transduction|synaptic transmission	plasma membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0191)|all_lung(126;0.0297)	Medulloblastoma(196;0.0109)|all_neural(177;0.0177)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CATTTGCAGGCAAAAAACATGC	0.376													4	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	174411189	174411189	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:174411189delT								MSX2 (253288 upstream) : DRD1 (456487 downstream)																							GCAAAGCTAGTTTCCATATTG	0.284													4	2	---	---	---	---	
UNC5A	90249	broad.mit.edu	37	5	176300163	176300164	+	Intron	INS	-	C	C	rs34458711		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176300163_176300164insC	uc003mey.2	+						UNC5A_uc010jkg.1_Intron	NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor						apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCCCACACTCACCAACACCACA	0.599													4	2	---	---	---	---	
COL23A1	91522	broad.mit.edu	37	5	177831398	177831398	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177831398delG	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)		cagtgctgctgggcagggcac	0.020													4	2	---	---	---	---	
AACSL	729522	broad.mit.edu	37	5	178197707	178197707	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178197707delA	uc011dgk.1	-						AACSL_uc011dgl.1_Intron|AACSL_uc003mjk.2_Intron	NR_024035				Homo sapiens acetoacetyl-CoA synthetase-like, mRNA (cDNA clone IMAGE:3945810), partial cds.												0						GTCACCAAGCAAAAAAAAGAG	0.488													4	2	---	---	---	---	
CNOT6	57472	broad.mit.edu	37	5	179930067	179930068	+	Intron	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179930067_179930068insA	uc003mlx.2	+						CNOT6_uc010jld.2_Intron|CNOT6_uc010jle.2_Intron	NM_015455	NP_056270	Q9ULM6	CNOT6_HUMAN	CCR4-NOT transcription complex, subunit 6						nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	exonuclease activity|metal ion binding|protein binding|RNA binding				0	all_cancers(89;3.3e-05)|all_epithelial(37;7.38e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00543)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.023)		AGCCACTGAAGAAAAAAAATGA	0.153													4	2	---	---	---	---	
NEDD9	4739	broad.mit.edu	37	6	11384845	11384845	+	5'Flank	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11384845delC	uc010joz.2	-						NEDD9_uc003mzw.3_5'Flank	NM_001142393	NP_001135865	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally						actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			AGTAGCCAAACCCCAGGCAAC	0.448													4	2	---	---	---	---	
PHACTR1	221692	broad.mit.edu	37	6	12751209	12751210	+	Intron	DEL	TG	-	-	rs140871883		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12751209_12751210delTG	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)			TCAAACAAAAtgtgtgtgtgtg	0.272													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	14902960	14902962	+	IGR	DEL	CTG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:14902960_14902962delCTG								CD83 (765814 upstream) : JARID2 (342772 downstream)																							TGTGCCATCTCTGCTGCTGCTGC	0.478													4	2	---	---	---	---	
ZNF389	651302	broad.mit.edu	37	6	28135337	28135337	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28135337delT	uc003nko.2	+							NM_001145129	NP_001138601			zinc finger protein 389												0						GAGAAGGTAATTTTGCAACTC	0.338													4	2	---	---	---	---	
MOG	4340	broad.mit.edu	37	6	29635099	29635100	+	Intron	INS	-	A	A	rs146893725	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29635099_29635100insA	uc003nnf.2	+						MOG_uc003nmy.1_Intron|MOG_uc003nmz.2_Intron|MOG_uc011dlt.1_Intron|MOG_uc003nna.2_Intron|MOG_uc011dlu.1_Intron|MOG_uc011dlv.1_Intron|MOG_uc003nnd.2_Intron|MOG_uc003nne.2_Intron|MOG_uc003nng.2_Intron|MOG_uc003nnh.2_Intron|MOG_uc003nni.2_Intron|MOG_uc003nnj.2_Intron|MOG_uc003nnk.2_Intron	NM_206809	NP_996532	Q16653	MOG_HUMAN	myelin oligodendrocyte glycoprotein isoform						cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1						TTTAGATAAACAAAGTGGCAAC	0.356													8	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	29735354	29735354	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29735354delT								IFITM4P (16429 upstream) : HCG4 (23455 downstream)																							actgaacacatttagaagaca	0.000													4	2	---	---	---	---	
VPS52	6293	broad.mit.edu	37	6	33238207	33238207	+	Intron	DEL	G	-	-	rs149913130	byFrequency	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33238207delG	uc003odm.1	-						VPS52_uc003odn.1_Intron|VPS52_uc003odo.1_Intron|VPS52_uc011dqy.1_Intron|VPS52_uc011dqz.1_Intron|RPS18_uc003odp.1_5'Flank|RPS18_uc010jum.1_5'Flank|RPS18_uc003odq.1_5'Flank	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52						protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5						AGAGTCTCACGTTGTACCCAC	0.428													2	5	---	---	---	---	
GRM4	2914	broad.mit.edu	37	6	34039900	34039901	+	Intron	DEL	AT	-	-	rs139555716		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:34039900_34039901delAT	uc003oir.3	-						GRM4_uc011dsn.1_Intron|GRM4_uc010jvh.2_Intron|GRM4_uc010jvi.2_Intron|GRM4_uc011dsl.1_Intron|GRM4_uc003oiq.2_Intron|GRM4_uc011dsm.1_Intron	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor						activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	cacaccacacatagacacacat	0.000													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	40593118	40593119	+	IGR	INS	-	C	C	rs70984176		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:40593118_40593119insC								LRFN2 (37992 upstream) : UNC5CL (401653 downstream)																							CACTGAGAGAACCTGGAAAGAC	0.446													4	2	---	---	---	---	
CAPN11	11131	broad.mit.edu	37	6	44149283	44149284	+	Intron	INS	-	AT	AT	rs112066417	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44149283_44149284insAT	uc003owt.1	+						CAPN11_uc011dvn.1_Intron	NM_007058	NP_008989	Q9UMQ6	CAN11_HUMAN	calpain 11						proteolysis	acrosomal vesicle	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)|breast(1)	2	all_cancers(18;3.19e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			ctcacacacacacacactcaca	0.010													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	44573265	44573265	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44573265delG								CDC5L (158486 upstream) : SUPT3H (203789 downstream)																							CTGTGGTGACGGGGAGGTCAG	0.552													4	4	---	---	---	---	
CD2AP	23607	broad.mit.edu	37	6	47446098	47446098	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47446098delC	uc003oyw.2	+							NM_012120	NP_036252	Q9Y5K6	CD2AP_HUMAN	CD2-associated protein						cell division|mitosis|protein complex assembly|signal transduction|substrate-dependent cell migration, cell extension	cytoplasm|filamentous actin|nucleolus|plasma membrane|ruffle	SH3 domain binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2			Lung(136;0.105)|LUSC - Lung squamous cell carcinoma(51;0.138)			AGCGGCAGCACCCCACCCTCT	0.682													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	53090010	53090010	+	IGR	DEL	G	-	-	rs35410024		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53090010delG								GCM1 (76386 upstream) : ELOVL5 (42186 downstream)																							AGGATTCTGAGGGTCTTTAGG	0.383													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	54524016	54524016	+	IGR	DEL	G	-	-	rs34295808		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54524016delG								TINAG (269066 upstream) : FAM83B (187553 downstream)																							GTGCTCTGTAGGGGTGATACT	0.507													2	4	---	---	---	---	
DST	667	broad.mit.edu	37	6	56426662	56426663	+	Intron	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56426662_56426663insA	uc003pdf.2	-						DST_uc003pcz.3_Intron|DST_uc011dxj.1_Intron|DST_uc011dxk.1_Intron|DST_uc003pcy.3_Intron	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2						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)			CAAATAACGTTATCCCAAGTGA	0.277													4	2	---	---	---	---	
DST	667	broad.mit.edu	37	6	56426666	56426668	+	Intron	DEL	CCA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56426666_56426668delCCA	uc003pdf.2	-						DST_uc003pcz.3_Intron|DST_uc011dxj.1_Intron|DST_uc011dxk.1_Intron|DST_uc003pcy.3_Intron	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2						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)			TAACGTTATCCCAAGTGACAAAA	0.281													4	2	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57358282	57358283	+	Intron	INS	-	ATT	ATT	rs10669217		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57358282_57358283insATT	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)		TTGACTTTAAAATGTGAACTCT	0.282													4	2	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57405466	57405466	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57405466delA	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)		GTATTTTTCTAAATCAAAATA	0.169													4	2	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57411440	57411441	+	Intron	INS	-	A	A	rs11391617		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57411440_57411441insA	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)		ttattttatttaaaaaataaCC	0.282													4	4	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57497954	57497955	+	Intron	DEL	TG	-	-	rs142530194		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57497954_57497955delTG	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)		GTTCTGTAACTGTAATTTTTTT	0.317													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57567372	57567374	+	IGR	DEL	GAA	-	-	rs142174260		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57567372_57567374delGAA								PRIM2 (53997 upstream) : GUSBL2 (678785 downstream)																							ttagagattggaagagaagcaag	0.000													4	4	---	---	---	---	
TTK	7272	broad.mit.edu	37	6	80744471	80744471	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80744471delA	uc003pjc.2	+						TTK_uc003pjb.3_Intron	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase						mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		TTAGATTTATACCTTTAAATT	0.323													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	81439178	81439179	+	IGR	INS	-	T	T	rs139049769	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:81439178_81439179insT								BCKDHB (383191 upstream) : None (None downstream)																							CATCATTTGGGTAAGTCTGCCT	0.307													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	82069758	82069759	+	IGR	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:82069758_82069759insT								None (None upstream) : FAM46A (385689 downstream)																							CCAAACCATTATTTTTTTTCTC	0.366													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	83195782	83195782	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83195782delT								TPBG (119168 upstream) : UBE2CBP (406404 downstream)																							agatggataattgtgttcccg	0.000													4	2	---	---	---	---	
SNX14	57231	broad.mit.edu	37	6	86274829	86274830	+	Intron	INS	-	AACA	AACA	rs149941530	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86274829_86274830insAACA	uc003pkr.2	-						SNX14_uc003pkp.2_Intron|SNX14_uc003pkq.2_Intron|SNX14_uc011dzg.1_Intron|SNX14_uc003pks.2_Intron|SNX14_uc003pkt.2_Intron	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a						cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		taaaagtaactgagtatatttg	0.025													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	87307155	87307156	+	IGR	INS	-	T	T	rs143099706	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:87307155_87307156insT								SNHG5 (918704 upstream) : HTR1E (339868 downstream)																							TATTATACATCTTTTTTTTCCC	0.277													6	7	---	---	---	---	
FOXO3	2309	broad.mit.edu	37	6	108889939	108889939	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:108889939delA	uc003psk.2	+						FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Intron	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A						antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase 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 factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		TGCAGCTCTGAAGGTGGCATC	0.493													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	110218009	110218010	+	IGR	INS	-	A	A	rs75437925		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110218009_110218010insA								FIG4 (71375 upstream) : GPR6 (81499 downstream)																							TCTGCCTAATCAAAAAAAAACA	0.312													4	2	---	---	---	---	
KIAA1919	91749	broad.mit.edu	37	6	111583284	111583284	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111583284delA	uc003puv.3	+							NM_153369	NP_699200	Q5TF39	NAGT1_HUMAN	sodium-dependent glucose transporter 1						carbohydrate transport|sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(3)	3		all_cancers(87;2.35e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.055)|all cancers(137;0.0871)|Epithelial(106;0.0884)		GTGTCAAAACAAAAAAAAAAT	0.284													17	9	---	---	---	---	
PTPRK	5796	broad.mit.edu	37	6	128297125	128297126	+	Intron	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128297125_128297126insT	uc003qbk.2	-						PTPRK_uc003qbj.2_Intron|PTPRK_uc010kfc.2_Intron|PTPRK_uc011ebu.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)		TTTATTAGCACTTTTTTTTTTA	0.218													2	4	---	---	---	---	
ARHGAP18	93663	broad.mit.edu	37	6	129993243	129993244	+	Intron	DEL	CA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:129993243_129993244delCA	uc003qbr.2	-						ARHGAP18_uc011ebw.1_Intron	NM_033515	NP_277050	Q8N392	RHG18_HUMAN	Rho GTPase activating protein 18						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			ovary(2)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(136;0.0621)|GBM - Glioblastoma multiforme(226;0.0638)|all cancers(137;0.074)		CGTACACGCGCACACACACACG	0.307													4	2	---	---	---	---	
L3MBTL3	84456	broad.mit.edu	37	6	130425882	130425882	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130425882delA	uc003qbt.2	+						L3MBTL3_uc003qbu.2_Intron	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		ACTTGAACTTAAAAAAAAAAA	0.294													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	147139112	147139112	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:147139112delC								C6orf103 (2517 upstream) : STXBP5 (386396 downstream)																							TTATACACCTCCCCAGTTGTA	0.219													4	2	---	---	---	---	
EZR	7430	broad.mit.edu	37	6	159219285	159219286	+	Intron	INS	-	G	G	rs146166881	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159219285_159219286insG	uc003qrt.3	-						EZR_uc011efs.1_Intron|EZR_uc003qru.3_Intron	NM_003379	NP_003370	P15311	EZRI_HUMAN	ezrin						actin filament bundle assembly|axon guidance|cytoskeletal anchoring at plasma membrane|leukocyte cell-cell adhesion|membrane to membrane docking|regulation of cell shape	actin filament|apical plasma membrane|basolateral plasma membrane|cortical cytoskeleton|cytosol|extrinsic to membrane|filopodium|microvillus membrane|nucleolus|ruffle membrane	actin filament binding|cell adhesion molecule binding			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-17)|BRCA - Breast invasive adenocarcinoma(81;6.58e-06)		tgctccttgttgcttttagcaa	0.035													1	6	---	---	---	---	
LPA	4018	broad.mit.edu	37	6	161027218	161027218	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161027218delA	uc003qtl.2	-							NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor						blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	ATGTTACAATAAAAATTTTGG	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	166477696	166477697	+	IGR	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:166477696_166477697insT								LOC441177 (74593 upstream) : T (93389 downstream)																							tcactcattaatttttttTTCG	0.257													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	167917334	167917334	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167917334delC								TCP10 (119336 upstream) : C6orf123 (267887 downstream)																							tggagtgaggcccAGGTGATG	0.284													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	168749922	168749922	+	IGR	DEL	A	-	-	rs67397075		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168749922delA								DACT2 (29520 upstream) : SMOC2 (92109 downstream)																							ctccatctcgaaaaaaaaaaG	0.229													4	2	---	---	---	---	
MAD1L1	8379	broad.mit.edu	37	7	2155903	2155904	+	Intron	DEL	TG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2155903_2155904delTG	uc003slh.1	-						MAD1L1_uc003sle.1_Intron|MAD1L1_uc003slf.1_Intron|MAD1L1_uc003slg.1_Intron|MAD1L1_uc010ksh.1_Intron|MAD1L1_uc003sli.1_Intron|MAD1L1_uc010ksi.1_Intron|MAD1L1_uc010ksj.2_Intron	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein						cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		GGCAGGCGGCTGTGTGTGTGCC	0.614													4	2	---	---	---	---	
RAC1	5879	broad.mit.edu	37	7	6427682	6427683	+	Intron	DEL	GT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6427682_6427683delGT	uc003spx.2	+						RAC1_uc003spw.2_Intron	NM_006908	NP_008839	P63000	RAC1_HUMAN	ras-related C3 botulinum toxin substrate 1						actin filament polymerization|apoptosis|axon guidance|cell motility|cell-matrix adhesion|induction of apoptosis by extracellular signals|inflammatory response|lamellipodium assembly|localization within membrane|negative regulation of interleukin-23 production|negative regulation of receptor-mediated endocytosis|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of lamellipodium assembly|positive regulation of Rho protein signal transduction|regulation of cell migration|regulation of defense response to virus by virus|regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|ruffle organization|small GTPase mediated signal transduction|T cell costimulation|viral reproduction	cytosol|melanosome|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity|thioesterase binding			lung(2)	2		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.104)	Pravastatin(DB00175)|Simvastatin(DB00641)	TGAAACTTGGGTGTGTGTGTTG	0.455													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	7588360	7588360	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:7588360delC								COL28A1 (12900 upstream) : MIOS (18256 downstream)																							GAATCCTTAGCCCCTGCAAAA	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	13493494	13493495	+	IGR	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:13493494_13493495insT								ARL4A (762938 upstream) : ETV1 (437363 downstream)																							taaatgatgtattttttttctA	0.193													4	2	---	---	---	---	
MACC1	346389	broad.mit.edu	37	7	20205318	20205318	+	Intron	DEL	T	-	-	rs112742797		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20205318delT	uc003sus.3	-						MACC1_uc010kug.2_Intron	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5						positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						CAAAACAGGATTTTTTTTTTT	0.343													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	28234654	28234654	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:28234654delC	uc011jzq.1	+											SubName: Full=cDNA FLJ59585;																		AGTGAGGAGTCCCAGCAGCAC	0.562													4	2	---	---	---	---	
BBS9	27241	broad.mit.edu	37	7	33323414	33323414	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:33323414delG	uc003tdn.1	+						BBS9_uc003tdo.1_Intron|BBS9_uc003tdp.1_Intron|BBS9_uc003tdq.1_Intron|BBS9_uc010kwn.1_Intron|BBS9_uc011kan.1_Intron|BBS9_uc011kao.1_Intron	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2						fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			AGGATTGTGTGGGGAGTTTTG	0.388									Bardet-Biedl_syndrome				4	2	---	---	---	---	
POU6F2	11281	broad.mit.edu	37	7	39054319	39054319	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:39054319delT	uc003thb.1	+						POU6F2_uc010kxo.2_Intron|uc003tha.1_5'Flank	NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1						central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						AATTGCAAGATTTTTTTTTTC	0.368													3	3	---	---	---	---	
HECW1	23072	broad.mit.edu	37	7	43495606	43495606	+	Intron	DEL	A	-	-	rs79589046		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43495606delA	uc003tid.1	+						HECW1_uc011kbi.1_Intron	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						tctcaaaaagaaaaaaaaaaa	0.139													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	45905242	45905243	+	IGR	DEL	AA	-	-	rs34563816		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45905242_45905243delAA								SEPT7P2 (96625 upstream) : IGFBP1 (22716 downstream)																							CCCAAAGCTGAAAGAGTCATCA	0.500													9	5	---	---	---	---	
ABCA13	154664	broad.mit.edu	37	7	48353573	48353580	+	Intron	DEL	TGTGTGTA	-	-	rs146131525	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48353573_48353580delTGTGTGTA	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						CTTAtgtgtgtgtgtgtatgtgtgtgtg	0.274													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	52321491	52321492	+	IGR	INS	-	GGC	GGC	rs33982475		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:52321491_52321492insGGC								COBL (936976 upstream) : POM121L12 (781857 downstream)																							cagtgctgacaatcaagggaga	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	52321492	52321493	+	IGR	INS	-	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:52321492_52321493insG								COBL (936977 upstream) : POM121L12 (781856 downstream)																							agtgctgacaatcaagggagat	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	57666717	57666718	+	IGR	INS	-	TT	TT			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57666717_57666718insTT								ZNF716 (133452 upstream) : None (None downstream)																							tatacttattatgttagtaaaa	0.000													4	2	---	---	---	---	
MLXIPL	51085	broad.mit.edu	37	7	73019877	73019880	+	Intron	DEL	AAAT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73019877_73019880delAAAT	uc003tyn.1	-						MLXIPL_uc003tyk.1_Intron|MLXIPL_uc003tyl.1_Intron|MLXIPL_uc003tym.1_Intron|MLXIPL_uc003tyo.1_Intron|MLXIPL_uc003typ.1_Intron|MLXIPL_uc003tyq.1_Intron	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14						anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				tgccatctcaaaataaataaataa	0.221													4	2	---	---	---	---	
MLXIPL	51085	broad.mit.edu	37	7	73022184	73022184	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73022184delT	uc003tyn.1	-						MLXIPL_uc003tyk.1_Intron|MLXIPL_uc003tyl.1_Intron|MLXIPL_uc003tym.1_Intron|MLXIPL_uc003tyo.1_Intron|MLXIPL_uc003typ.1_Intron|MLXIPL_uc003tyq.1_5'Flank	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14						anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				TAGAtcttccttttttttttt	0.050													5	4	---	---	---	---	
RUNDC3B	154661	broad.mit.edu	37	7	87445230	87445231	+	Intron	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87445230_87445231insT	uc003ujb.2	+						RUNDC3B_uc011khd.1_Intron|RUNDC3B_uc011khe.1_Intron|RUNDC3B_uc003ujc.2_Intron|RUNDC3B_uc003ujd.2_Intron	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a											skin(1)	1	Esophageal squamous(14;0.00164)					CTGACAAACTCTTTTTTTTTCC	0.292													3	3	---	---	---	---	
AKAP9	10142	broad.mit.edu	37	7	91603646	91603647	+	Intron	INS	-	T	T	rs149871677	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91603646_91603647insT	uc003ulg.2	+						AKAP9_uc003uld.3_Intron|AKAP9_uc003ule.2_Intron|AKAP9_uc003ulf.2_Intron	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2						G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			gtccaacttcattttttttgtt	0.074			T	BRAF	papillary thyroid								4	2	---	---	---	---	
TRRAP	8295	broad.mit.edu	37	7	98532919	98532919	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98532919delA	uc003upp.2	+						TRRAP_uc011kis.1_Intron|TRRAP_uc003upr.2_Intron	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated						histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TTTTGAGGAGAAAAAAAAACG	0.249													4	2	---	---	---	---	
RASA4	10156	broad.mit.edu	37	7	102252614	102252615	+	Intron	INS	-	CAGGA	CAGGA	rs139576549	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102252614_102252615insCAGGA	uc003vae.2	-						UPK3BL_uc003uzy.2_Intron|RASA4_uc011kla.1_5'Flank|RASA4_uc010lig.2_Intron|RASA4_uc003vaf.2_Intron|RASA4_uc011klb.1_Intron|RASA4_uc010lih.2_Intron|RASA4_uc011kld.1_Intron	NM_006989	NP_008920	O43374	RASL2_HUMAN	RAS p21 protein activator 4 isoform 1						intracellular signal transduction|negative regulation of Ras protein signal transduction	cytosol|intrinsic to internal side of plasma membrane	metal ion binding|Ras GTPase activator activity				0						ctccctcgccccaggacgggac	0.005													4	2	---	---	---	---	
IMMP2L	83943	broad.mit.edu	37	7	110928979	110928983	+	Intron	DEL	TACCC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:110928979_110928983delTACCC	uc003vfq.1	-						IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron	NM_032549	NP_115938	Q96T52	IMP2L_HUMAN	IMP2 inner mitochondrial membrane protease-like						protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)		actaggcatatacccaaaagattgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	116438863	116438863	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116438863delT								MET (424 upstream) : CAPZA2 (12261 downstream)																							GTGCCCACCCTTTTACCCCCA	0.448													4	2	---	---	---	---	
WNT2	7472	broad.mit.edu	37	7	116932348	116932349	+	Intron	DEL	CA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116932348_116932349delCA	uc003viz.2	-						WNT2_uc003vja.2_Intron	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family						atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		CAACcacactcacacacacaca	0.287													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	119354994	119354994	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:119354994delA								None (None upstream) : KCND2 (558728 downstream)																							ttcttatattaaaaaaaaaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	129240585	129240585	+	IGR	DEL	A	-	-	rs67327512		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129240585delA								FAM40B (112348 upstream) : NRF1 (10970 downstream)																							AAAACAAAACAAAAAACATCA	0.378													3	5	---	---	---	---	
CHCHD3	54927	broad.mit.edu	37	7	132693731	132693731	+	Intron	DEL	A	-	-	rs67779368		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132693731delA	uc003vre.2	-						CHCHD3_uc010lmi.2_Intron|CHCHD3_uc003vrf.2_Intron|CHCHD3_uc010lmj.2_Intron|CHCHD3_uc011kpn.1_Intron	NM_017812	NP_060282	Q9NX63	CHCH3_HUMAN	coiled-coil-helix-coiled-coil-helix domain						inner mitochondrial membrane organization|mitochondrial fusion	mitochondrial inner membrane	protein complex scaffold				0						aaaaaagaccaaaaaaaaaaa	0.308													4	3	---	---	---	---	
NEIL2	252969	broad.mit.edu	37	8	11641557	11641558	+	Intron	INS	-	A	A	rs142747970	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11641557_11641558insA	uc003wug.2	+						NEIL2_uc003wue.2_Intron|NEIL2_uc003wuf.2_Intron|NEIL2_uc011kxd.1_Intron	NM_145043	NP_659480	Q969S2	NEIL2_HUMAN	nei like 2 isoform a						base-excision repair|nucleotide-excision repair	nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|hydrolase activity, hydrolyzing N-glycosyl compounds|zinc ion binding				0	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		TCTTATTACTCACAGTAGGGGA	0.441								BER_DNA_glycosylases					4	3	---	---	---	---	
BRF2	55290	broad.mit.edu	37	8	37704284	37704284	+	Intron	DEL	A	-	-	rs78433761		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37704284delA	uc003xkk.2	-							NM_018310	NP_060780	Q9HAW0	BRF2_HUMAN	RNA polymerase III transcription initiation						regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter|transcription initiation, DNA-dependent	nucleoplasm	protein binding|zinc ion binding				0		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			agactccaagaaaaaaaaaaa	0.234													8	4	---	---	---	---	
PRKDC	5591	broad.mit.edu	37	8	48799931	48799931	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48799931delT	uc003xqi.2	-						PRKDC_uc003xqj.2_Intron|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic						cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TATTCCGTTCTTTTTTTTTTT	0.323								NHEJ					5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	52867630	52867630	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52867630delT								PCMTD1 (55895 upstream) : ST18 (155762 downstream)																							AAATGTACACTTTTTTTTTTT	0.323													7	5	---	---	---	---	
XKR4	114786	broad.mit.edu	37	8	56197176	56197177	+	Intron	DEL	GA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:56197176_56197177delGA	uc003xsf.2	+							NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related							integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			acaggtgattgagagagagaga	0.000													3	3	---	---	---	---	
XKR4	114786	broad.mit.edu	37	8	56270664	56270664	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:56270664delA	uc003xsf.2	+							NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related							integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			TCTTAGTAGGAAAAAAAAAAT	0.368													5	3	---	---	---	---	
PENK	5179	broad.mit.edu	37	8	57359051	57359052	+	5'Flank	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:57359051_57359052insA	uc003xsz.2	-						uc003xtb.1_RNA|PENK_uc003xta.3_Intron|PENK_uc010lym.2_Intron	NM_006211	NP_006202	P01210	PENK_HUMAN	proenkephalin						neuropeptide signaling pathway	extracellular region	neuropeptide hormone activity|opioid peptide activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_lung(136;0.229)	Epithelial(17;0.000873)|all cancers(17;0.0069)			CTAGAGGGAAGAGAAGAAGGCA	0.614													4	2	---	---	---	---	
EYA1	2138	broad.mit.edu	37	8	72128623	72128624	+	Intron	INS	-	GCTAATTCTTCGAAGGAT	GCTAATTCTTCGAAGGAT	rs139399702	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:72128623_72128624insGCTAATTCTTCGAAGGAT	uc003xys.3	-						EYA1_uc003xyr.3_Intron|EYA1_uc003xyt.3_Intron|EYA1_uc010lzf.2_Intron|EYA1_uc003xyu.2_Intron|EYA1_uc011lfe.1_Intron|EYA1_uc003xyv.2_Intron	NM_172058	NP_742055	Q99502	EYA1_HUMAN	eyes absent 1 isoform b						double-strand break repair|histone dephosphorylation|positive regulation of DNA repair|protein sumoylation|regulation of transcription, DNA-dependent|response to ionizing radiation|sensory perception of sound|transcription, DNA-dependent	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	5	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			GGGCAGAGGTGGCTAATTCTTC	0.238													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	76640168	76640169	+	IGR	INS	-	GGGA	GGGA			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:76640168_76640169insGGGA								HNF4G (161109 upstream) : LOC100192378 (882946 downstream)																							agcaagtgagtgggacaggaaa	0.000													1	5	---	---	---	---	
RALYL	138046	broad.mit.edu	37	8	85748085	85748085	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:85748085delT	uc003ycq.3	+						RALYL_uc003ycr.3_Intron|RALYL_uc003ycs.3_Intron|RALYL_uc010lzy.2_Intron|RALYL_uc003yct.3_Intron|RALYL_uc003ycu.3_Intron|RALYL_uc003ycv.3_Intron	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2								identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						AGCAAGGAGATTTTTTTTTTT	0.393													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	96170661	96170662	+	IGR	INS	-	C	C	rs75287442		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:96170661_96170662insC								PLEKHF2 (1750 upstream) : C8orf37 (87573 downstream)																							tttttttttttctgagatgaag	0.139													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	110816255	110816256	+	IGR	DEL	TC	-	-	rs71795329		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110816255_110816256delTC								SYBU (112235 upstream) : KCNV1 (162979 downstream)																							atgatttgtatctctctccctc	0.089													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	128352434	128352435	+	Intron	INS	-	AG	AG			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128352434_128352435insAG	uc003ysc.1	-						uc003ysd.1_Intron|LOC727677_uc003yse.1_Intron					Homo sapiens isolate DGPc1_8_exons1-2-3-4-6-8 unknown mRNA, alternatively spliced.																		actaggacagaagagtactgta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	134788581	134788581	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134788581delG								ST3GAL1 (204398 upstream) : ZFAT (701452 downstream)																							CTGTCAGGCTGGGGGCTGAGC	0.542													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	140517175	140517176	+	IGR	INS	-	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:140517175_140517176insC								COL22A1 (590939 upstream) : KCNK9 (95906 downstream)																							AGCAGAACTGACCCCCTGTGTT	0.480													4	2	---	---	---	---	
TRAPPC9	83696	broad.mit.edu	37	8	141263210	141263211	+	Intron	DEL	CT	-	-	rs140935423		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141263210_141263211delCT	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						GCAATCACCCCTGTTTATGAAG	0.460													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	145071885	145071885	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145071885delT								GRINA (4302 upstream) : SPATC1 (14697 downstream)																							ACTCCCACTCTTTTTTTTCCC	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	1166266	1166267	+	IGR	DEL	TT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:1166266_1166267delTT								DMRT2 (108713 upstream) : SMARCA2 (849075 downstream)																							ATCCATCTTGTTTTTTTTTTTG	0.267													4	2	---	---	---	---	
MTAP	4507	broad.mit.edu	37	9	21967163	21967163	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:21967163delA	uc003zpi.1	+						C9orf53_uc011lnm.1_RNA	NM_002451	NP_002442	Q13126	MTAP_HUMAN	5'-methylthioadenosine phosphorylase						nucleoside metabolic process	cytoplasm	phosphorylase activity|S-methyl-5-thioadenosine phosphorylase activity			central_nervous_system(1)	1		all_cancers(5;0)|Hepatocellular(5;0.00162)|Colorectal(97;0.173)		GBM - Glioblastoma multiforme(3;0)|Lung(24;2.24e-57)|LUSC - Lung squamous cell carcinoma(38;1.97e-36)|STAD - Stomach adenocarcinoma(4;3.26e-05)|OV - Ovarian serous cystadenocarcinoma(39;0.00931)|COAD - Colon adenocarcinoma(8;0.15)	Adenine(DB00173)	CGTGTACCCTAAAAAAAAAAA	0.303													6	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	26643663	26643663	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:26643663delA								TUSC1 (964807 upstream) : C9orf82 (197021 downstream)																							gtggtttaggaaaaaaaaaga	0.119													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	26757819	26757820	+	IGR	INS	-	T	T	rs111481012		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:26757819_26757820insT								None (None upstream) : C9orf82 (82864 downstream)																							CAATGTTTTAATTTTTTTTTTT	0.327													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	38202068	38202069	+	IGR	INS	-	A	A	rs137965007	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:38202068_38202069insA								SHB (132858 upstream) : ALDH1B1 (190633 downstream)																							TCAAGCTGGACAGAGCATTCTT	0.455													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66458656	66458657	+	5'Flank	DEL	TT	-	-	rs112515286		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66458656_66458657delTT	uc010mng.1	-						uc004aeb.2_5'Flank|uc004aec.2_Intron					Homo sapiens cDNA, FLJ98602.																		atcccttaactttttaactttt	0.307													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66463991	66463992	+	Intron	DEL	TT	-	-	rs146846716		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66463991_66463992delTT	uc004aec.2	+											Homo sapiens, clone IMAGE:5213378, mRNA.																		AGCCATTCTCTTTTCATTCCCC	0.287													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	67337092	67337092	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:67337092delT								AQP7P1 (47600 upstream) : FAM27B (455838 downstream)																							ataaaaatgcttcaacaagca	0.005													11	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68385894	68385894	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68385894delC								FAM27B (591705 upstream) : MIR1299 (616345 downstream)																							caggagcaaacaaattcaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68393606	68393606	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68393606delA								FAM27B (599417 upstream) : MIR1299 (608633 downstream)																							tgtttgttggaaaaagttctt	0.000													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68408198	68408199	+	5'Flank	INS	-	T	T	rs149448637	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68408198_68408199insT	uc004aew.1	+											Homo sapiens cDNA, FLJ98602.																		tgttcttcaaaaaaaagaagaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68416908	68416909	+	IGR	DEL	AA	-	-	rs146026031		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68416908_68416909delAA								FAM27B (622719 upstream) : MIR1299 (585330 downstream)																							ATTAAAAGTTAAGatagatttt	0.020													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	74406958	74406958	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:74406958delA								TMEM2 (23158 upstream) : FAM108B1 (70412 downstream)																							ccaggaaaagaaaaaaaaaaa	0.000													3	5	---	---	---	---	
TMC1	117531	broad.mit.edu	37	9	75449229	75449229	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:75449229delC	uc004aiz.1	+						TMC1_uc004aja.1_Intron|TMC1_uc004ajb.1_Intron|TMC1_uc004ajc.1_Intron|TMC1_uc010mpa.1_Intron	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1						sensory perception of sound	integral to membrane				ovary(1)	1						agtctgttttctctaagctgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	79165082	79165083	+	IGR	INS	-	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79165082_79165083insG								GCNT1 (42752 upstream) : PRUNE2 (61210 downstream)																							gaactcatcatgggaaacctgc	0.000													4	2	---	---	---	---	
TLE4	7091	broad.mit.edu	37	9	82189562	82189562	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:82189562delA	uc004ald.2	+						TLE4_uc004alc.2_Intron|TLE4_uc010mpr.2_Intron|TLE4_uc004ale.2_Intron|TLE4_uc011lsq.1_Intron|TLE4_uc010mps.2_Intron|TLE4_uc004alf.2_5'Flank	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4											lung(2)|ovary(1)|breast(1)|skin(1)	5						AAACTTAATTAAAAAAAAAAT	0.323													7	4	---	---	---	---	
KIF27	55582	broad.mit.edu	37	9	86523177	86523177	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86523177delA	uc004ana.2	-						KIF27_uc010mpw.2_Intron|KIF27_uc010mpx.2_Intron	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27						cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						actccatctcaaaaaaaaaaa	0.109													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	86650666	86650666	+	IGR	DEL	T	-	-	rs7862847	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86650666delT								RMI1 (31684 upstream) : SLC28A3 (242426 downstream)																							cttcttccccttttttttttt	0.000													6	6	---	---	---	---	
NXNL2	158046	broad.mit.edu	37	9	91168961	91168961	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:91168961delG	uc004aqa.2	+							NM_145283	NP_660326	Q5VZ03	NXNL2_HUMAN	nucleoredoxin-like 2 isoform 2												0						TCTCTCTCCAGGCCTGGGCTG	0.408													5	5	---	---	---	---	
FANCC	2176	broad.mit.edu	37	9	98009494	98009495	+	Intron	INS	-	GT	GT	rs71498956		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:98009494_98009495insGT	uc004avh.2	-						FANCC_uc004avi.3_Intron|FANCC_uc010mrm.1_Intron|FANCC_uc011lul.1_Intron	NM_000136	NP_000127	Q00597	FANCC_HUMAN	Fanconi anemia, complementation group C						protein complex assembly	cytosol|nucleoplasm	protein binding			kidney(1)	1		Acute lymphoblastic leukemia(62;0.138)				tgcgtgcacgcgtgtgtgtgtg	0.292			D|Mis|N|F|S			AML|leukemia		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	98963361	98963361	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:98963361delT								NCRNA00092 (179324 upstream) : HSD17B3 (34228 downstream)																							CCTGAGTGGCTTTTTACTCAT	0.453													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	100582208	100582209	+	IGR	DEL	TG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100582208_100582209delTG								XPA (122517 upstream) : FOXE1 (33328 downstream)																							tgtatgtgtttgtgtgtgtgtg	0.436													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	100794642	100794642	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100794642delA								ANP32B (16420 upstream) : NANS (13247 downstream)																							aaaaatttagaaaaaaaaaag	0.000													1	5	---	---	---	---	
IKBKAP	8518	broad.mit.edu	37	9	111689458	111689458	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111689458delA	uc004bdm.3	-						IKBKAP_uc011lwc.1_Intron|IKBKAP_uc010mtq.2_Intron	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene						immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						TTCAGTCACCAAAAAAAAATC	0.284													3	3	---	---	---	---	
PTPN3	5774	broad.mit.edu	37	9	112202287	112202287	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112202287delC	uc004bed.2	-						PTPN3_uc004beb.2_Intron|PTPN3_uc004bec.2_Intron|PTPN3_uc010mtu.2_Intron|PTPN3_uc011lwg.1_Intron|PTPN3_uc011lwh.1_Intron	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type						negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						CTTTTGAGATCCACACCATAA	0.229													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	118399486	118399486	+	IGR	DEL	G	-	-	rs146217243	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:118399486delG								DEC1 (234563 upstream) : C9orf27 (251060 downstream)																							GAATATTACTGGGTGTAGGAG	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	122238002	122238002	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:122238002delA								DBC1 (106263 upstream) : MIR147 (769255 downstream)																							aaaactggttagccatatgta	0.000													4	2	---	---	---	---	
DAB2IP	153090	broad.mit.edu	37	9	124412985	124412986	+	Intron	DEL	GA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:124412985_124412986delGA	uc004bln.2	+							NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform						activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						AAGGGGCGGGGAGAGAGAGAGA	0.416													5	3	---	---	---	---	
PTGS1	5742	broad.mit.edu	37	9	125145490	125145491	+	Intron	INS	-	AAG	AAG			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125145490_125145491insAAG	uc004bmg.1	+						PTGS1_uc011lys.1_Intron|PTGS1_uc010mwb.1_Intron|PTGS1_uc004bmf.1_Intron|PTGS1_uc004bmh.1_Intron|PTGS1_uc011lyt.1_Intron	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1						cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	ttttttcttttttttttttttc	0.000													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	127957481	127957481	+	IGR	DEL	A	-	-	rs79479616		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127957481delA								PPP6C (5263 upstream) : RABEPK (5336 downstream)																							cgtctcaaataaaaaaaaaaa	0.229													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	137739280	137739281	+	Intron	DEL	GT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137739280_137739281delGT	uc004cff.2	-											Homo sapiens cDNA clone IMAGE:5468304, partial cds.																		tgcctgtgtggtgtgtgtgtgt	0.000													4	2	---	---	---	---	
ADARB2	105	broad.mit.edu	37	10	1572615	1572615	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1572615delT	uc009xhq.2	-						uc001ign.2_Intron	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)		AGTCACTTCGTCCTCCTTTCT	0.428													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	2680133	2680133	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:2680133delA								ADARB2 (900415 upstream) : PFKP (429619 downstream)																							GATCATCTGTAAAAAGTGATG	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	4240716	4240717	+	IGR	INS	-	ATT	ATT	rs141698512	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:4240716_4240717insATT								KLF6 (413243 upstream) : LOC100216001 (380727 downstream)																							AATTCTCTACCATTTATTTAAG	0.198													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	4594911	4594912	+	IGR	DEL	AA	-	-	rs72022205		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:4594911_4594912delAA								KLF6 (767438 upstream) : LOC100216001 (26532 downstream)																							GTTTTAAAGGAAAAGACAAGCA	0.441													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	11439684	11439684	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11439684delC								CELF2 (61014 upstream) : USP6NL (62825 downstream)																							ACTTCATGCTCCCCACCTGAG	0.597													4	2	---	---	---	---	
FRMD4A	55691	broad.mit.edu	37	10	13776657	13776657	+	Intron	DEL	C	-	-	rs34445355		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:13776657delC	uc001ims.2	-						FRMD4A_uc009xjf.1_Intron|FRMD4A_uc001imt.1_Intron|FRMD4A_uc001imu.1_Intron	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A							cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						CTTCTCCTTACACCCAGTTGA	0.532													6	6	---	---	---	---	
CUBN	8029	broad.mit.edu	37	10	16896553	16896553	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16896553delA	uc001ioo.2	-						CUBN_uc009xjq.1_Intron	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor						cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TGCTGTGGTGAGGGCTGCAGG	0.428													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	19341287	19341287	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:19341287delT								ARL5B (374347 upstream) : PLXDC2 (764085 downstream)																							TAAATGTTACTTTTTTTTGTC	0.333													4	2	---	---	---	---	
PLXDC2	84898	broad.mit.edu	37	10	20506729	20506729	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:20506729delT	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						GCACTGTGCCTTTTTTTAAGA	0.343													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	23594896	23594897	+	IGR	INS	-	CA	CA	rs149195889	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:23594896_23594897insCA								PTF1A (111717 upstream) : C10orf67 (10624 downstream)																							ttacatacgcgcacacacacac	0.000													4	2	---	---	---	---	
PRTFDC1	56952	broad.mit.edu	37	10	25162383	25162383	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:25162383delA	uc001ise.1	-						PRTFDC1_uc010qdd.1_Intron|PRTFDC1_uc001isf.1_Intron|PRTFDC1_uc009xkm.1_Intron	NM_020200	NP_064585	Q9NRG1	PRDC1_HUMAN	phosphoribosyl transferase domain containing 1						adenine salvage|central nervous system neuron development|cerebral cortex neuron differentiation|cytolysis|dendrite morphogenesis|GMP salvage|grooming behavior|hypoxanthine metabolic process|IMP salvage|lymphocyte proliferation|positive regulation of dopamine metabolic process|purine ribonucleoside salvage|response to amphetamine|striatum development	cytosol	hypoxanthine phosphoribosyltransferase activity|magnesium ion binding|nucleotide binding|protein homodimerization activity			ovary(1)	1						CCTTGGGGAGAAAAAAACAAT	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	45736261	45736261	+	IGR	DEL	A	-	-	rs35312527		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:45736261delA								LOC100133308 (86217 upstream) : OR13A1 (61841 downstream)																							AGGCAGTGAGAAAAAAAAATA	0.373													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	49243752	49243753	+	IGR	DEL	GG	-	-	rs147706526	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:49243752_49243753delGG								FRMPD2L1 (380120 upstream) : FRMPD2 (120855 downstream)																							GATTGGGCTTGGGTGTGTGTGT	0.287													4	2	---	---	---	---	
C10orf71	118461	broad.mit.edu	37	10	50530449	50530449	+	5'UTR	DEL	A	-	-	rs141182587		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50530449delA	uc010qgp.1	+	3						NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2												0						TTTTGCAGAGAAAAAAAAAAA	0.403													6	3	---	---	---	---	
PARG	8505	broad.mit.edu	37	10	51633256	51633256	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:51633256delT	uc001jih.2	-						uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|uc010qhh.1_Intron	NM_003631	NP_003622	Q86W56	PARG_HUMAN	poly (ADP-ribose) glycohydrolase						carbohydrate metabolic process	nucleus	poly(ADP-ribose) glycohydrolase activity			ovary(2)	2				Epithelial(53;0.213)		GTGAAGATAATTTTTTTTTTC	0.294													5	7	---	---	---	---	
PRKG1	5592	broad.mit.edu	37	10	52974251	52974251	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:52974251delT	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)		agaaaaactcttttttttttt	0.100													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	60199985	60199986	+	IGR	DEL	CT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:60199985_60199986delCT								TFAM (44089 upstream) : BICC1 (72918 downstream)																							atcccggatactctctctctct	0.000													4	2	---	---	---	---	
ANK3	288	broad.mit.edu	37	10	61836411	61836412	+	Intron	INS	-	A	A	rs76542121		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61836411_61836412insA	uc001jky.2	-						ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron|ANK3_uc009xpc.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1						establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AATCTGAAGTTAAAAAAAAACA	0.287													4	4	---	---	---	---	
CTNNA3	29119	broad.mit.edu	37	10	68036588	68036589	+	Intron	INS	-	T	T	rs138477713	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:68036588_68036589insT	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						cctattgtttattaagcatttc	0.114													4	4	---	---	---	---	
CDH23	64072	broad.mit.edu	37	10	73191992	73191993	+	Intron	DEL	TG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:73191992_73191993delTG	uc001jrx.3	+						CDH23_uc001jrw.3_Intron|CDH23_uc001jrv.2_Intron|CDH23_uc009xql.2_Intron	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor						calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						tgtttgagaatgtgtgtgtgtg	0.178													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	85015983	85015983	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:85015983delT								NRG3 (269048 upstream) : GHITM (883202 downstream)																							TAAAACCGAGTTTTTTTTTCT	0.323													4	2	---	---	---	---	
BTAF1	9044	broad.mit.edu	37	10	93775377	93775378	+	Intron	INS	-	A	A	rs138657508	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93775377_93775378insA	uc001khr.2	+							NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription						negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				GATGTCATGTGAAAAAAATCTG	0.317													4	2	---	---	---	---	
IDE	3416	broad.mit.edu	37	10	94235933	94235933	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94235933delT	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)	ATTAACCATCttttttttttt	0.124													9	4	---	---	---	---	
CWF19L1	55280	broad.mit.edu	37	10	102028785	102028786	+	5'Flank	DEL	AG	-	-	rs79305060		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102028785_102028786delAG	uc001kqq.1	-						CWF19L1_uc001kqs.1_5'Flank|CWF19L1_uc001kqr.1_5'Flank|CWF19L1_uc001kqt.1_5'Flank|CWF19L1_uc010qpn.1_5'Flank	NM_018294	NP_060764	Q69YN2	C19L1_HUMAN	CWF19-like 1, cell cycle control								catalytic activity				0		Colorectal(252;0.117)		Epithelial(162;3.78e-10)|all cancers(201;3.1e-08)		AATGGAAACAAGAGAGAGTTCC	0.238													3	3	---	---	---	---	
TRIM8	81603	broad.mit.edu	37	10	104417608	104417609	+	3'UTR	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104417608_104417609insT	uc001kvz.2	+	6						NM_030912	NP_112174	Q9BZR9	TRIM8_HUMAN	tripartite motif-containing 8							cytoplasm|PML body	ligase activity|protein homodimerization activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		TGCGACTTTTGTTTTTGTTTTT	0.441													4	2	---	---	---	---	
GRK5	2869	broad.mit.edu	37	10	121003082	121003083	+	Intron	INS	-	TTC	TTC	rs28488908		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121003082_121003083insTTC	uc001led.2	+						GRK5_uc009xzh.2_Intron|GRK5_uc010qta.1_Intron	NM_005308	NP_005299	P34947	GRK5_HUMAN	G protein-coupled receptor kinase 5						G-protein signaling, coupled to cAMP nucleotide second messenger|regulation of G-protein coupled receptor protein signaling pathway|tachykinin receptor signaling pathway	cytoplasm|plasma membrane|soluble fraction	ATP binding|G-protein coupled receptor kinase activity|phospholipid binding|protein kinase C binding|signal transducer activity			lung(2)|stomach(1)	3		Lung NSC(174;0.0971)|all_lung(145;0.127)|Ovarian(717;0.249)		all cancers(201;0.0227)		gtttttcttttttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	130115168	130115168	+	Intron	DEL	T	-	-	rs148017154		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:130115168delT	uc001lkg.1	+											Homo sapiens cDNA FLJ42232 fis, clone THYMU3000224.																		ttgaactgacttttttttttt	0.139													11	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	132040045	132040045	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:132040045delT								GLRX3 (57261 upstream) : TCERG1L (850611 downstream)																							cttttctgtgtttttttttct	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	4752543	4752544	+	IGR	DEL	AC	-	-	rs115806910	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4752543_4752544delAC								OR51E2 (33467 upstream) : OR51F1 (37666 downstream)																							ACCACTCCCAACACACACACAA	0.198													4	2	---	---	---	---	
SBF2	81846	broad.mit.edu	37	11	10275317	10275317	+	Intron	DEL	A	-	-	rs150363012		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10275317delA	uc001mib.2	-							NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2						myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		CCAAATCTCCAAAAAAAAACA	0.328													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	19298647	19298647	+	IGR	DEL	T	-	-	rs72318343		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:19298647delT								E2F8 (35480 upstream) : NAV2 (73624 downstream)																							ATAGTGCTGGTGTGTGTCATA	0.502													2	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	26872440	26872441	+	IGR	INS	-	A	A	rs141310749	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:26872440_26872441insA								SLC5A12 (127466 upstream) : FIBIN (143187 downstream)																							TTGACACTTACAAAAAAAATGC	0.243													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	27310261	27310261	+	IGR	DEL	T	-	-	rs78511808		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:27310261delT								BBOX1 (160907 upstream) : CCDC34 (49800 downstream)																							CTTTTGTTCATTTTTTTTTTC	0.398													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	32231334	32231334	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32231334delG								RCN1 (104063 upstream) : WT1 (177991 downstream)																							tctgggctttgggtcccatcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	32275832	32275832	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32275832delC								RCN1 (148561 upstream) : WT1 (133493 downstream)																							ATGCAGTCTTCCCCCCAACCC	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	41626926	41626926	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:41626926delA								LRRC4C (145603 upstream) : None (None downstream)																							taataatagcaaaaaaaAGAC	0.174													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	44792224	44792224	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44792224delG								CD82 (150911 upstream) : TSPAN18 (89655 downstream)																							tctggctgctgggtggagggc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	56497842	56497842	+	IGR	DEL	T	-	-	rs34877127		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56497842delT								OR9G9 (29063 upstream) : OR9G4 (12463 downstream)																							atttatgtacttttttttttt	0.000													5	6	---	---	---	---	
MS4A13	503497	broad.mit.edu	37	11	60309732	60309732	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60309732delA	uc001nps.2	+						MS4A13_uc009ync.2_Intron|MS4A13_uc009ynd.2_Intron	NM_001012417	NP_001012417	Q5J8X5	M4A13_HUMAN	membrane-spanning 4-domains, subfamily A, member							integral to membrane					0						aaagagaaagaaagaaagaaa	0.000													5	3	---	---	---	---	
MS4A13	503497	broad.mit.edu	37	11	60309736	60309738	+	Intron	DEL	AAA	-	-	rs11230377		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60309736_60309738delAAA	uc001nps.2	+						MS4A13_uc009ync.2_Intron|MS4A13_uc009ynd.2_Intron	NM_001012417	NP_001012417	Q5J8X5	M4A13_HUMAN	membrane-spanning 4-domains, subfamily A, member							integral to membrane					0						agaaagaaagaaagaaaaaggaa	0.000													5	3	---	---	---	---	
FLRT1	23769	broad.mit.edu	37	11	63881076	63881079	+	Intron	DEL	TGGA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63881076_63881079delTGGA	uc001nyi.1	+						MACROD1_uc001nyh.2_Intron	NM_013280	NP_037412	Q9NZU1	FLRT1_HUMAN	fibronectin leucine rich transmembrane protein						cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity				0						gatggttaggtggatggatggatg	0.000													2	5	---	---	---	---	
C11orf85	283129	broad.mit.edu	37	11	64726566	64726566	+	Intron	DEL	A	-	-	rs34562472		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64726566delA	uc001ocb.1	-						C11orf85_uc001occ.1_Intron|C11orf85_uc001ocd.1_Intron	NM_001037225	NP_001032302	Q3KP22	CK085_HUMAN	hypothetical protein LOC283129												0						gcttctcttcaaaaaaaaaaa	0.129													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	69186014	69186015	+	IGR	INS	-	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:69186014_69186015insC								MYEOV (29565 upstream) : CCND1 (269858 downstream)																							TCAGCCTCTGGCCCCCCAAACC	0.535													4	2	---	---	---	---	
ANO1	55107	broad.mit.edu	37	11	69986030	69986030	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:69986030delT	uc001opj.2	+						ANO1_uc001opk.1_Intron|ANO1_uc001opl.1_Intron|ANO1_uc010rqk.1_Intron	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel						multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						TGCTTGTTCCTGACTGGATTA	0.502													4	2	---	---	---	---	
RNF169	254225	broad.mit.edu	37	11	74457267	74457267	+	5'Flank	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:74457267delT	uc001ovl.3	+							NM_001098638	NP_001092108	Q8NCN4	RN169_HUMAN	ring finger protein 169								zinc ion binding			ovary(1)	1						TTCAATACTCttttttttttt	0.294													3	3	---	---	---	---	
C11orf67	28971	broad.mit.edu	37	11	77578307	77578307	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:77578307delT	uc001oyq.2	+						C11orf67_uc001oyp.2_Intron|C11orf67_uc001oyr.1_Intron	NM_024684	NP_078960	Q9H7C9	CK067_HUMAN	hypothetical protein LOC28971												0	all_cancers(14;5.69e-19)|all_epithelial(13;2.15e-21)|Breast(9;1.16e-15)|Ovarian(111;0.152)		Epithelial(5;1.37e-49)|all cancers(3;5.58e-46)|BRCA - Breast invasive adenocarcinoma(5;7.26e-31)			TCAACAGCTCTTTTCCTATAC	0.204													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	80710269	80710269	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:80710269delC								None (None upstream) : None (None downstream)																							atcacacaatctcaccactta	0.000													6	4	---	---	---	---	
FOLH1B	219595	broad.mit.edu	37	11	89409584	89409584	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:89409584delT	uc001pda.2	+							NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B						proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						cttttcttacttttttttttt	0.249													15	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	89726627	89726627	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:89726627delA								TRIM64 (19389 upstream) : UBTFL1 (92491 downstream)																							AGAAATAAAGAAAAAAAAAAA	0.303													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	90927978	90927978	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:90927978delT								MIR1261 (325608 upstream) : None (None downstream)																							GTTAGGCTGATTTTTTTTTTT	0.368													4	2	---	---	---	---	
MAML2	84441	broad.mit.edu	37	11	95980376	95980376	+	Intron	DEL	A	-	-	rs75115900		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:95980376delA	uc001pfw.1	-							NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2						Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				CAGACCATGCAAAAAAAAAAT	0.378			T	MECT1|CRTC3	salivary gland mucoepidermoid								6	3	---	---	---	---	
TMEM123	114908	broad.mit.edu	37	11	102269328	102269328	+	3'UTR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102269328delA	uc001pha.2	-	5					TMEM123_uc009yxc.2_3'UTR	NM_052932	NP_443164	Q8N131	PORIM_HUMAN	transmembrane protein 123 precursor						oncosis	external side of plasma membrane|integral to membrane	receptor activity			breast(2)	2	all_cancers(8;0.00027)|all_epithelial(12;0.0021)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0314)|Lung(13;0.109)|all cancers(10;0.12)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0149)		CACCCCAGCCAAAAAAAAAAA	0.388													9	4	---	---	---	---	
DYNC2H1	79659	broad.mit.edu	37	11	102999057	102999058	+	Intron	DEL	AG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102999057_102999058delAG	uc001pho.2	+						DYNC2H1_uc001phn.1_Intron|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1						cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		gattggaagcagagagaccagt	0.000													4	2	---	---	---	---	
DYNC2H1	79659	broad.mit.edu	37	11	103325049	103325050	+	Intron	DEL	TG	-	-	rs147066810	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103325049_103325050delTG	uc001pho.2	+						DYNC2H1_uc001phn.1_Intron|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1						cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		GTACCATCTCTGTGCACCAGCT	0.337													3	3	---	---	---	---	
CUL5	8065	broad.mit.edu	37	11	107917406	107917406	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107917406delT	uc001pjv.2	+						CUL5_uc001pju.2_Intron	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing						cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		CACACAGATCTTTTTTTTTCT	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	110914852	110914852	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110914852delT								ARHGAP20 (330940 upstream) : C11orf53 (211855 downstream)																							AAATCTTTCCTTTTTTTTCCT	0.323													4	2	---	---	---	---	
USP28	57646	broad.mit.edu	37	11	113702425	113702425	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:113702425delA	uc001poh.2	-						USP28_uc001pog.2_5'Flank|USP28_uc010rwy.1_Intron|USP28_uc001poi.2_Intron|USP28_uc001poj.3_Intron|USP28_uc010rwz.1_Intron	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28						cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		CTTTAGTTAGAAAAAAAAAAA	0.388													4	3	---	---	---	---	
USP28	57646	broad.mit.edu	37	11	113711062	113711065	+	Intron	DEL	CTCA	-	-	rs142754847		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:113711062_113711065delCTCA	uc001poh.2	-						USP28_uc010rwy.1_Intron|USP28_uc001poi.2_Intron|USP28_uc001poj.3_Intron|USP28_uc010rwz.1_Intron	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28						cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		cttattcactctcacTGCTATAAT	0.152													7	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	121314805	121314806	+	IGR	DEL	GT	-	-	rs67118053		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:121314805_121314806delGT								SC5DL (130688 upstream) : SORL1 (8155 downstream)																							gtgcgcgtgggtgtgtgtgtgt	0.000													6	3	---	---	---	---	
NTM	50863	broad.mit.edu	37	11	131784213	131784213	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:131784213delT	uc001qgp.2	+						NTM_uc001qgm.2_Intron|NTM_uc010sch.1_Intron|NTM_uc010sci.1_Intron|NTM_uc010scj.1_Intron|NTM_uc001qgo.2_Intron|NTM_uc001qgq.2_Intron	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1						cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						cttccgtttgtttttttctgt	0.343											OREG0021538	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	12	297850	297853	+	IGR	DEL	CACA	-	-	rs72310778		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:297850_297853delCACA								IQSEC3 (11528 upstream) : SLC6A12 (1397 downstream)																							tatgcacacccacacacacacagg	0.240													4	3	---	---	---	---	
WNK1	65125	broad.mit.edu	37	12	936687	936689	+	Intron	DEL	TTG	-	-	rs80189368		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:936687_936689delTTG	uc001qio.3	+						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)			ATAGCCTTTTttgttgttgttgt	0.143													4	2	---	---	---	---	
ERC1	23085	broad.mit.edu	37	12	1517592	1517593	+	Intron	INS	-	GTTGGT	GTTGGT	rs4017715		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1517592_1517593insGTTGGT	uc001qjb.2	+						ERC1_uc001qiz.2_Intron|ERC1_uc001qjc.2_Intron|ERC1_uc001qja.2_Intron|ERC1_uc001qjd.2_Intron|ERC1_uc001qjf.2_Intron|ERC1_uc010sdv.1_Intron|ERC1_uc001qje.2_Intron	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon						I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			CTTTATAGGAAGAACTGGATAT	0.272													11	5	---	---	---	---	
EFCAB4B	84766	broad.mit.edu	37	12	3763849	3763849	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3763849delG	uc001qmj.2	-						EFCAB4B_uc010sen.1_Intron|EFCAB4B_uc010seo.1_Intron|EFCAB4B_uc001qmi.1_Intron	NM_032680	NP_116069	Q9BSW2	EFC4B_HUMAN	EF-hand calcium binding domain 4B isoform c						activation of store-operated calcium channel activity|store-operated calcium entry	cytoplasm	calcium ion binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)			CACTAGCAAAGGAACTTCCAC	0.333													4	2	---	---	---	---	
ANO2	57101	broad.mit.edu	37	12	5886578	5886580	+	Intron	DEL	AGG	-	-	rs75258607		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5886578_5886580delAGG	uc001qnm.2	-							NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2							chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						GCAAAAAATCAGGAGAAGAAAGA	0.468													4	3	---	---	---	---	
LOC642846	642846	broad.mit.edu	37	12	9460104	9460105	+	Intron	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9460104_9460105insA	uc010sgp.1	+						LOC642846_uc001qvp.2_Intron	NR_024374				Homo sapiens cDNA FLJ60280 complete cds, highly similar to Probable ATP-dependent RNA helicase DDX11 (EC 3.6.1.-).												0						CAGGAGCAGTGCAGACTCCTCT	0.530													3	3	---	---	---	---	
LOH12CR1	118426	broad.mit.edu	37	12	12510571	12510571	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12510571delA	uc001ral.2	+						LOH12CR1_uc009zhu.2_Intron|LOH12CR2_uc001rak.2_5'Flank	NM_058169	NP_477517	Q969J3	L12R1_HUMAN	LOH1CR12											ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.0205)		TGCTAGTAGGAAAAAAAAAAA	0.572													10	5	---	---	---	---	
GRIN2B	2904	broad.mit.edu	37	12	14065214	14065215	+	Intron	DEL	AG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14065214_14065215delAG	uc001rbt.2	-							NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B						response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GAGAATCAGCAGAGAGAGAGAA	0.416													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	14652131	14652132	+	IGR	INS	-	AC	AC			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14652131_14652132insAC								ATF7IP (435 upstream) : PLBD1 (4465 downstream)																							GATGTGTATGTACACACACACA	0.302													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	29554348	29554349	+	IGR	DEL	AG	-	-	rs5797320		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29554348_29554349delAG								ERGIC2 (20205 upstream) : OVCH1 (26140 downstream)																							TGGGTCAAACAGGGGGTGCTAA	0.351													1	5	---	---	---	---	
TMTC1	83857	broad.mit.edu	37	12	29763847	29763847	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29763847delT	uc001rjb.2	-						TMTC1_uc001riz.2_Intron|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)					TTTCATGAGCTCTAAAATTTA	0.398													4	2	---	---	---	---	
DENND5B	160518	broad.mit.edu	37	12	31595483	31595483	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31595483delA	uc001rki.1	-						DENND5B_uc001rkh.1_Intron|DENND5B_uc009zjq.1_Intron|DENND5B_uc001rkj.2_Intron	NM_144973	NP_659410	Q6ZUT9	DEN5B_HUMAN	DENN/MADD domain containing 5B							integral to membrane				ovary(1)|central_nervous_system(1)	2						CTTGAAAAAGAAAAAAAAATC	0.279													4	3	---	---	---	---	
AMN1	196394	broad.mit.edu	37	12	31861948	31861949	+	Intron	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31861948_31861949insA	uc001rkq.3	-						AMN1_uc001rko.3_Intron|AMN1_uc010skc.1_Intron|AMN1_uc001rkp.3_Intron|AMN1_uc009zjs.2_Intron|AMN1_uc009zjt.1_Intron	NM_001113402	NP_001106873	Q8IY45	AMN1_HUMAN	antagonist of mitotic exit network 1 homolog												0	all_cancers(9;7.41e-12)|all_epithelial(9;1.18e-11)|all_lung(12;1.14e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.162)		OV - Ovarian serous cystadenocarcinoma(6;0.0014)			cctgtctctacaaaaaatgcaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	47447169	47447170	+	IGR	INS	-	A	A	rs142831335	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47447169_47447170insA								SLC38A4 (227389 upstream) : AMIGO2 (22321 downstream)																							TTCCTGCCCTCAATTCCTTCCC	0.297													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	59828443	59828443	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:59828443delG								LRIG3 (514181 upstream) : SLC16A7 (161405 downstream)																							gcagaaaggagggggaagaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	67434010	67434011	+	IGR	DEL	AA	-	-	rs67846705		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:67434010_67434011delAA								GRIP1 (236116 upstream) : CAND1 (229050 downstream)																							CCCCCCCAGCAAAGTGTCATGG	0.401													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	77377712	77377712	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:77377712delA								CSRP2 (104913 upstream) : E2F7 (37315 downstream)																							AGAAACAAACAAAAAAAAACA	0.323													4	2	---	---	---	---	
SYT1	6857	broad.mit.edu	37	12	79702371	79702372	+	Intron	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:79702371_79702372insA	uc001sys.2	+						SYT1_uc001syt.2_Intron|SYT1_uc001syu.2_Intron|SYT1_uc001syv.2_Intron	NM_001135805	NP_001129277	P21579	SYT1_HUMAN	synaptotagmin I						detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6						ggaaaagaaagaagaaagaaag	0.054													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	79881465	79881467	+	IGR	DEL	TTT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:79881465_79881467delTTT								SYT1 (35678 upstream) : PAWR (104280 downstream)																							AAGATCAGTGTTTTTTTTTTTTT	0.320													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	85119421	85119421	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:85119421delT								None (None upstream) : SLC6A15 (133848 downstream)																							ATTACATCACTTTTGCAGATC	0.428													4	2	---	---	---	---	
MGAT4C	25834	broad.mit.edu	37	12	86593164	86593165	+	Intron	INS	-	G	G	rs150683073	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:86593164_86593165insG	uc001tai.3	-						MGAT4C_uc001tal.3_Intron|MGAT4C_uc001taj.3_Intron|MGAT4C_uc001tak.3_Intron|MGAT4C_uc010sum.1_Intron|MGAT4C_uc001tah.3_Intron	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein						post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						TAGGGGAAAAAGTAGAATTTTG	0.361													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	90428453	90428453	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:90428453delG								LOC338758 (322725 upstream) : C12orf12 (917540 downstream)																							gtctcgggctgggcttgttgc	0.060													4	2	---	---	---	---	
BTG1	694	broad.mit.edu	37	12	92509682	92509684	+	Intron	DEL	ATG	-	-	rs112446800		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:92509682_92509684delATG	uc001tbv.1	-						BTG1_uc001tbw.1_Intron|BTG1_uc001tbx.1_Intron|BTG1_uc009zss.1_Intron			P62324	BTG1_HUMAN	Homo sapiens full length insert cDNA clone YW25A12.						cell migration|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of angiogenesis|positive regulation of endothelial cell differentiation|positive regulation of myoblast differentiation|regulation of apoptosis|regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|transcription cofactor activity				0		Acute lymphoblastic leukemia(6;3.02e-13)|all_hematologic(6;4.32e-09)				tcatatgaacatgatgtttctcc	0.079			T	MYC	BCLL								4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	98306856	98306856	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:98306856delC								RMST (348063 upstream) : LOC100128191 (599897 downstream)																							TCATCATCTGCCCCAGGGACC	0.443													4	2	---	---	---	---	
C12orf42	374470	broad.mit.edu	37	12	103659578	103659587	+	Intron	DEL	TGTTTTGTTT	-	-	rs142178637		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:103659578_103659587delTGTTTTGTTT	uc001tjs.2	-									Q96LP6	CL042_HUMAN	Homo sapiens cDNA FLJ25323 fis, clone TST00323.											ovary(1)|central_nervous_system(1)	2						TTTCTTAGGCtgttttgttttgttttgttt	0.357													6	3	---	---	---	---	
NT5DC3	51559	broad.mit.edu	37	12	104205815	104205815	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104205815delC	uc010swe.1	-							NM_001031701	NP_001026871	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3								hydrolase activity|metal ion binding			ovary(2)|skin(1)	3						CTCTACCCCTCCCTTTCTATT	0.328													4	2	---	---	---	---	
CHST11	50515	broad.mit.edu	37	12	105050114	105050114	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105050114delT	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						ATTTTCTATCTTTTTTCCAAG	0.473													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	106353805	106353805	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106353805delA								C12orf75 (588510 upstream) : NUAK1 (103320 downstream)																							ccgagcttttaaacactacgc	0.045													4	2	---	---	---	---	
BTBD11	121551	broad.mit.edu	37	12	108022389	108022389	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108022389delT	uc001tmk.1	+						BTBD11_uc009zut.1_Intron|BTBD11_uc001tmj.2_Intron|BTBD11_uc001tml.1_Intron	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a							integral to membrane	DNA binding			skin(2)|ovary(1)	3						taaggagggctttttttttct	0.080													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	108058521	108058523	+	IGR	DEL	GCT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108058521_108058523delGCT								BTBD11 (5102 upstream) : PWP1 (21067 downstream)																							gcatcccagcgctgctgctgctg	0.222													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	110047731	110047732	+	IGR	INS	-	G	G	rs149101671	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110047731_110047732insG								MVK (12661 upstream) : C12orf34 (104458 downstream)																							TGATAAATGGAGGGGCAGGGGG	0.530													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	114729870	114729870	+	IGR	DEL	G	-	-	rs72176887		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:114729870delG								RBM19 (325694 upstream) : TBX5 (61866 downstream)																							GATCTATGTTGGGGGGGGGAA	0.413													4	2	---	---	---	---	
CCDC64	92558	broad.mit.edu	37	12	120501336	120501337	+	Intron	INS	-	T	T	rs139922688	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120501336_120501337insT	uc001txl.1	+						CCDC64_uc001txk.2_Intron|CCDC64_uc009zwv.1_Intron|CCDC64_uc010sze.1_5'Flank	NM_207311	NP_997194	Q6ZP65	BICR1_HUMAN	coiled-coil domain containing 64						Golgi to secretory granule transport|neuron projection development	centrosome	dynactin binding|Rab GTPase binding			ovary(2)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCTCGTAGGACTGAAACAAGCT	0.396													4	3	---	---	---	---	
DNAH10	196385	broad.mit.edu	37	12	124415758	124415758	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124415758delA	uc001uft.3	+						DNAH10_uc001ufu.3_Intron	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		accctgtctcaaaaaaaaaaa	0.224													6	4	---	---	---	---	
TMEM132D	121256	broad.mit.edu	37	12	130210847	130210847	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130210847delG	uc009zyl.1	-							NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor							integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		gggtggacttgggaccctgga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	131896535	131896536	+	IGR	INS	-	GT	GT			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:131896535_131896536insGT								LOC116437 (199060 upstream) : SFRS8 (299099 downstream)																							GGGTTGGACACgtgtgtgtgtg	0.401													3	3	---	---	---	---	
EP400	57634	broad.mit.edu	37	12	132465533	132465533	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132465533delG	uc001ujn.2	+						EP400_uc001ujl.2_Intron|EP400_uc001ujm.2_Intron|EP400_uc001ujj.1_Intron|EP400_uc001ujk.2_Intron	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400						histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		aacaatttctggttctttcac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	132911100	132911100	+	IGR	DEL	T	-	-	rs113537162		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132911100delT								GALNT9 (5195 upstream) : FBRSL1 (156057 downstream)																							ACACCCCGGATTTTTTTTTTa	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	24957281	24957281	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24957281delG								C1QTNF9 (60616 upstream) : PARP4 (37794 downstream)																							GTTTTGGTGTGGTCTTGGTGG	0.353													4	2	---	---	---	---	
RNF6	6049	broad.mit.edu	37	13	26782635	26782635	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:26782635delC	uc001uqn.1	-									Q9Y252	RNF6_HUMAN	SubName: Full=RNF6 protein;						negative regulation of axon extension|positive regulation of transcription, DNA-dependent|protein K27-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|regulation of androgen receptor signaling pathway|ubiquitin-dependent protein catabolic process	axon|cytoplasm|PML body	androgen receptor binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.00893)|Epithelial(112;0.0481)|OV - Ovarian serous cystadenocarcinoma(117;0.148)|GBM - Glioblastoma multiforme(144;0.23)|Lung(94;0.245)		tagactttgtcccatgcacct	0.000													4	2	---	---	---	---	
FLT1	2321	broad.mit.edu	37	13	28897312	28897312	+	Intron	DEL	A	-	-	rs76987666		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28897312delA	uc001usb.3	-						FLT1_uc010aap.2_5'Flank|FLT1_uc010aaq.2_Intron|FLT1_uc001usa.3_Intron	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1						cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	TAGATCAGATAAAAAAAAAAA	0.303													7	4	---	---	---	---	
MTUS2	23281	broad.mit.edu	37	13	29675219	29675219	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:29675219delT	uc001usl.3	+							NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a							cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						ATCACCTCCCTTAGCTTCCCA	0.428													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	31930162	31930162	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:31930162delG								B3GALTL (23753 upstream) : RXFP2 (383517 downstream)																							ggagactgttggaagggatga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	33400298	33400298	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:33400298delA								PDS5B (48143 upstream) : KL (189903 downstream)																							aattatttttaaaaaccctac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	33528108	33528108	+	IGR	DEL	A	-	-	rs112783556		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:33528108delA								PDS5B (175953 upstream) : KL (62093 downstream)																							TACCAAAGTTAAAAAAAAAAT	0.378													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	35152872	35152872	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:35152872delC								RFC3 (612178 upstream) : NBEA (363584 downstream)																							AGGCATCTCACCAGGCCCGGG	0.418													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	46468313	46468313	+	IGR	DEL	A	-	-	rs67332309		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46468313delA								SIAH3 (42467 upstream) : ZC3H13 (61492 downstream)																							GGCTCCACAGAAAAAAAAAAA	0.493													4	2	---	---	---	---	
C13orf18	80183	broad.mit.edu	37	13	46920550	46920553	+	Intron	DEL	CTAA	-	-	rs143182918		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46920550_46920553delCTAA	uc010acl.2	-						C13orf18_uc010tfy.1_Intron|C13orf18_uc001vbf.3_Intron|C13orf18_uc001vbg.3_Intron|C13orf18_uc010tfz.1_Intron|C13orf18_uc010acm.2_Intron|C13orf18_uc010acn.2_Intron|C13orf18_uc001vbe.3_Intron|C13orf18_uc001vbh.3_Intron|C13orf18_uc001vbi.3_Intron	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183												0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		TATCTCACTCCTAACTGAGCTAAA	0.529													9	10	---	---	---	---	
FNDC3A	22862	broad.mit.edu	37	13	49748887	49748888	+	Intron	INS	-	AT	AT			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:49748887_49748888insAT	uc001vcm.2	+						FNDC3A_uc001vcn.2_Intron|FNDC3A_uc001vco.2_Intron|FNDC3A_uc001vcp.1_Intron|FNDC3A_uc001vcq.2_Intron	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A							Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		CACAGGAAACATTAAACTTACA	0.297													6	3	---	---	---	---	
NEK3	4752	broad.mit.edu	37	13	52708176	52708176	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52708176delT	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)		TACtttattctttttttttga	0.204													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	53899157	53899157	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53899157delT								OLFM4 (272971 upstream) : MIR1297 (986950 downstream)																							TGTTTCTTCATTTTTTTTTCC	0.353													4	2	---	---	---	---	
KLHL1	57626	broad.mit.edu	37	13	70293328	70293345	+	Intron	DEL	GTGTGTGTGTGTGTGAGA	-	-	rs71966264		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:70293328_70293345delGTGTGTGTGTGTGTGAGA	uc001vip.2	-						KLHL1_uc010thm.1_Intron	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein						actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		gtgtgtgtgtgtgtgtgtgtgtgtgagagagagagaga	0.220													7	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	73065411	73065411	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73065411delA								DACH1 (624081 upstream) : C13orf37 (217084 downstream)																							TCAGAGGCAGAAAAAAAAAAA	0.323													6	5	---	---	---	---	
ABCC4	10257	broad.mit.edu	37	13	95775381	95775381	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:95775381delA	uc001vmd.3	-						ABCC4_uc010afk.2_Intron|ABCC4_uc001vme.2_Intron|ABCC4_uc010tih.1_Intron	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4						platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	AGTGACTTATAAAAACCCAAA	0.383													4	2	---	---	---	---	
PCCA	5095	broad.mit.edu	37	13	100755485	100755488	+	Intron	DEL	TAAC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100755485_100755488delTAAC	uc001voo.2	+						PCCA_uc010aga.2_Intron|PCCA_uc010tiz.1_Intron	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha						fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	TCCAGCAGAATAACTAAGAAAACA	0.250													5	5	---	---	---	---	
FGF14	2259	broad.mit.edu	37	13	102941305	102941306	+	Intron	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:102941305_102941306insT	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)					TGTCAGGTTTCTTTTTTTTTTT	0.292													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	109946035	109946036	+	IGR	INS	-	CA	CA			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:109946035_109946036insCA								MYO16 (85680 upstream) : IRS2 (460150 downstream)																							acacacaacctcacacacacac	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	112782881	112782882	+	IGR	DEL	CT	-	-	rs148962558		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:112782881_112782882delCT								SOX1 (56861 upstream) : C13orf28 (247787 downstream)																							TATTCCTTCCCTGTTTTTCTCC	0.545													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	22124662	22124663	+	IGR	DEL	AG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22124662_22124663delAG								OR10G2 (21664 upstream) : OR4E2 (8634 downstream)																							TATCCAAATCAGAGTGTATTTT	0.267													2	8	---	---	---	---	
DHRS4	10901	broad.mit.edu	37	14	24426765	24426765	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24426765delC	uc001wla.2	+						C14orf167_uc010akx.1_5'Flank|DHRS4_uc010aky.2_Intron|DHRS4_uc001wlb.2_Intron|DHRS4_uc010akz.2_Intron|DHRS4_uc001wlc.3_Intron|DHRS4L2_uc001wld.3_Intron|DHRS4L2_uc001wle.3_Intron	NM_021004	NP_066284	Q9BTZ2	DHRS4_HUMAN	peroxisomal short-chain alcohol dehydrogenase							mitochondrion|nuclear membrane|peroxisome	binding|carbonyl reductase (NADPH) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00962)	Vitamin A(DB00162)	AGAAGACtttccttttttttt	0.159													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	26653301	26653301	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:26653301delT								None (None upstream) : NOVA1 (261789 downstream)																							taaaaattaatttttaaaaaa	0.388													4	2	---	---	---	---	
SCFD1	23256	broad.mit.edu	37	14	31192049	31192049	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31192049delA	uc001wqm.1	+						SCFD1_uc001wqn.1_Intron|SCFD1_uc010tpg.1_Intron|SCFD1_uc010tph.1_Intron|SCFD1_uc010amf.1_Intron|SCFD1_uc010tpi.1_Intron	NM_016106	NP_057190	Q8WVM8	SCFD1_HUMAN	vesicle transport-related protein isoform a						post-Golgi vesicle-mediated transport|protein transport|regulation of ER to Golgi vesicle-mediated transport|response to toxin|retrograde vesicle-mediated transport, Golgi to ER|vesicle docking involved in exocytosis	cis-Golgi network|endoplasmic reticulum membrane|Golgi cisterna membrane|Golgi-associated vesicle|plasma membrane	syntaxin-5 binding				0	Hepatocellular(127;0.0877)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)	GBM - Glioblastoma multiforme(265;0.0181)		ACCTCTTCCCAAAAAAAAAAA	0.294													1	5	---	---	---	---	
NPAS3	64067	broad.mit.edu	37	14	33485612	33485615	+	Intron	DEL	GAAT	-	-	rs67545917		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33485612_33485615delGAAT	uc001wru.2	+						NPAS3_uc001wrs.2_Intron|NPAS3_uc001wrt.2_Intron|NPAS3_uc001wrv.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)		AATATTCATGgaatgaatgaatga	0.196													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	38924529	38924529	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38924529delT								CLEC14A (198955 upstream) : SEC23A (576594 downstream)																							AGTGATTTGATTTTTTTTATT	0.299													4	2	---	---	---	---	
L2HGDH	79944	broad.mit.edu	37	14	50778268	50778269	+	Intron	INS	-	T	T	rs149575004	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50778268_50778269insT	uc001wxu.2	-						L2HGDH_uc010tqn.1_Intron|L2HGDH_uc010tqo.1_Intron|ATP5S_uc001wxv.2_5'Flank|ATP5S_uc001wxw.1_5'Flank|ATP5S_uc001wxx.1_5'Flank	NM_024884	NP_079160	Q9H9P8	L2HDH_HUMAN	L-2-hydroxyglutarate dehydrogenase precursor						2-oxoglutarate metabolic process|cellular protein metabolic process	integral to mitochondrial inner membrane	2-hydroxyglutarate dehydrogenase activity			ovary(2)	2	all_epithelial(31;0.000599)|Breast(41;0.0102)					gggggcaacactatgcggggtg	0.040													4	3	---	---	---	---	
MAP4K5	11183	broad.mit.edu	37	14	50895169	50895170	+	Intron	DEL	TC	-	-	rs148587036		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50895169_50895170delTC	uc001wya.2	-						MAP4K5_uc001wyb.2_Intron	NM_006575	NP_006566	Q9Y4K4	M4K5_HUMAN	mitogen-activated protein kinase kinase kinase						activation of JUN kinase activity	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(1)	1	all_epithelial(31;0.000415)|Breast(41;0.0102)					agacggggtttctctccatgtt	0.000													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	59067727	59067728	+	IGR	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:59067727_59067728insA								KIAA0586 (52179 upstream) : DACT1 (33058 downstream)																							tagttttcaagaaaaaaaaatg	0.124													4	2	---	---	---	---	
SLC38A6	145389	broad.mit.edu	37	14	61533233	61533233	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:61533233delA	uc001xfh.1	+						SLC38A6_uc001xfi.2_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)		TGCCAGGGAGAAAAAAAAAAC	0.383													3	3	---	---	---	---	
WDR89	112840	broad.mit.edu	37	14	64109000	64109000	+	5'Flank	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64109000delG	uc001xgh.2	-						WDR89_uc001xgi.2_5'Flank	NM_001008726	NP_001008726	Q96FK6	WDR89_HUMAN	WD repeat domain 89												0				OV - Ovarian serous cystadenocarcinoma(108;0.00543)|all cancers(60;0.0181)|BRCA - Breast invasive adenocarcinoma(234;0.101)		AGACTAATGCGGGGAGAAATA	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	66555467	66555468	+	IGR	INS	-	TA	TA			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66555467_66555468insTA								FUT8 (345506 upstream) : C14orf53 (397641 downstream)																							ACTTTGCTCTCTATAGAAATTA	0.386													4	2	---	---	---	---	
RAD51L1	5890	broad.mit.edu	37	14	68713976	68713976	+	Intron	DEL	A	-	-	rs76546522		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68713976delA	uc001xkf.1	+						RAD51L1_uc001xkd.2_Intron|RAD51L1_uc010aqr.2_Intron|RAD51L1_uc001xke.2_Intron|RAD51L1_uc010aqs.1_Intron|RAD51L1_uc001xkg.1_Intron	NM_133509	NP_598193	O15315	RA51B_HUMAN	RAD51-like 1 isoform 3						blood coagulation|DNA repair|reciprocal meiotic recombination	nucleoplasm	ATP binding|DNA binding|DNA-dependent ATPase activity				0				UCEC - Uterine corpus endometrioid carcinoma (185;0.163)|all cancers(60;3.9e-06)|OV - Ovarian serous cystadenocarcinoma(108;0.000103)|BRCA - Breast invasive adenocarcinoma(234;0.000421)		CTTCAGCTTGAAAAAAAAAAT	0.308			T	HMGA2	lipoma|uterine leiomyoma			Direct_reversal_of_damage|Homologous_recombination					4	2	---	---	---	---	
PAPLN	89932	broad.mit.edu	37	14	73714165	73714166	+	Intron	DEL	TG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73714165_73714166delTG	uc010ttx.1	+						PAPLN_uc001xnw.3_Intron|PAPLN_uc010arl.2_Intron|PAPLN_uc010ttw.1_Intron|PAPLN_uc010tty.1_Intron|uc001xnx.2_5'Flank	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin							proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		ATATTCTCTCTGTGTGTGTGTG	0.530													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	74773278	74773279	+	IGR	DEL	TG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74773278_74773279delTG								ABCD4 (3511 upstream) : C14orf115 (41887 downstream)																							GTAGTTGGTTtgtgtgtgtgtg	0.149													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	75082877	75082877	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75082877delT								LTBP2 (3843 upstream) : KIAA0317 (45080 downstream)																							TGAGTTTTGCTTTTTTTTTTT	0.279													3	3	---	---	---	---	
TTLL5	23093	broad.mit.edu	37	14	76235631	76235631	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76235631delG	uc001xrx.2	+						TTLL5_uc010ask.1_Intron|TTLL5_uc001xrz.2_Intron|TTLL5_uc001xry.1_Intron	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5						protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		ttaggggTTTGGGGAAAGTCC	0.259													4	2	---	---	---	---	
C14orf166B	145497	broad.mit.edu	37	14	77294269	77294269	+	Intron	DEL	C	-	-	rs11327879		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77294269delC	uc001xsx.2	+						C14orf166B_uc010asn.1_Intron|C14orf166B_uc001xsw.2_Intron|C14orf166B_uc010aso.1_Intron|C14orf166B_uc010tvg.1_Intron	NM_194287	NP_919263	Q0VAA2	CN16B_HUMAN	hypothetical protein LOC145497												0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0306)		TGTATCGGGACCCACCCTTTC	0.517													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	84883260	84883260	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:84883260delT								None (None upstream) : None (None downstream)																							ttgcatggaatttttttttta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	85786687	85786688	+	IGR	DEL	CA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:85786687_85786688delCA								None (None upstream) : FLRT2 (209800 downstream)																							CTTGCATAGCCACACACACACT	0.411													4	2	---	---	---	---	
TTC8	123016	broad.mit.edu	37	14	89337820	89337821	+	Intron	INS	-	AT	AT	rs146447441	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89337820_89337821insAT	uc010ath.2	+						TTC8_uc001xxl.2_Intron|TTC8_uc010ati.2_Intron|TTC8_uc001xxm.2_Intron|TTC8_uc010atj.2_Intron|TTC8_uc001xxi.2_Intron|TTC8_uc001xxj.2_Intron|TTC8_uc001xxk.2_Intron	NM_198309	NP_938051	Q8TAM2	TTC8_HUMAN	tetratricopeptide repeat domain 8 isoform B						cilium assembly|establishment of anatomical structure orientation|sensory processing	BBSome|centrosome|cilium membrane|microtubule basal body	protein binding				0						AACTGTGTAAAATATATATATA	0.277									Bardet-Biedl_syndrome				24	13	---	---	---	---	
C14orf159	80017	broad.mit.edu	37	14	91682569	91682570	+	Intron	INS	-	A	A	rs67244593		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:91682569_91682570insA	uc001xzb.2	+						C14orf159_uc001xyx.2_Intron|C14orf159_uc001xyw.2_Intron|C14orf159_uc001xzc.2_Intron|C14orf159_uc001xza.2_Intron|C14orf159_uc001xyv.2_Intron|C14orf159_uc001xyz.2_Intron|C14orf159_uc001xze.2_Intron	NM_001102366	NP_001095836	Q7Z3D6	CN159_HUMAN	hypothetical protein LOC80017 isoform a							mitochondrion				central_nervous_system(2)|ovary(1)	3		all_cancers(154;0.0191)|all_epithelial(191;0.241)		Epithelial(152;0.141)|OV - Ovarian serous cystadenocarcinoma(161;0.207)		TCAGACCGCAGGCCCACAAGGa	0.307													4	2	---	---	---	---	
C14orf48	256369	broad.mit.edu	37	14	94469803	94469804	+	Intron	DEL	AC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94469803_94469804delAC	uc001ycg.1	+						C14orf48_uc001ycf.2_Intron|C14orf48_uc010twp.1_Intron	NR_024184				Homo sapiens cDNA FLJ40422 fis, clone TESTI2038858.												0				Epithelial(152;0.114)|all cancers(159;0.191)|COAD - Colon adenocarcinoma(157;0.208)		acgcacgcagacacacacacac	0.213													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	95004882	95004883	+	IGR	INS	-	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95004882_95004883insC								SERPINA12 (20701 upstream) : SERPINA4 (22896 downstream)																							TTTATTTTTTTCCCCAAAGCAG	0.500													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	98840555	98840556	+	IGR	INS	-	T	T	rs36023093		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:98840555_98840556insT								C14orf64 (396094 upstream) : C14orf177 (337394 downstream)																							CAAGAGTTGAATTTTTTTTTTT	0.267													6	5	---	---	---	---	
ADAM6	8755	broad.mit.edu	37	14	107161755	107161755	+	Intron	DEL	T	-	-	rs67713734		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107161755delT	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0						GTTCTCCTTCTCTTGAATTGT	0.383													4	4	---	---	---	---	
TUBGCP5	114791	broad.mit.edu	37	15	22868518	22868518	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22868518delT	uc001yur.3	+						TUBGCP5_uc001yuq.2_Intron	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5						G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		ATTTACTTGATTTTTTTTTTA	0.323													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	23108635	23108636	+	Intron	INS	-	T	T	rs145228617	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23108635_23108636insT	uc001yvf.2	-											Homo sapiens cDNA clone IMAGE:5275816.																		caatatttaaatttttttaatt	0.129													6	3	---	---	---	---	
GOLGA8G	283768	broad.mit.edu	37	15	28771697	28771698	+	Intron	INS	-	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28771697_28771698insC	uc001zbu.2	-						GOLGA8G_uc001zbt.3_Intron|GOLGA8G_uc001zbv.2_Intron|GOLGA8F_uc010uah.1_Intron|uc002cdz.2_5'Flank	NM_001012420	NP_001012420			golgi autoantigen, golgin subfamily a, 8G												0		all_lung(180;1.98e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;4.69e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0201)|GBM - Glioblastoma multiforme(186;0.0503)|Lung(196;0.171)		CTGGATTCCaaaaaaaaaaaaa	0.490													3	3	---	---	---	---	
RYR3	6263	broad.mit.edu	37	15	34072212	34072212	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34072212delA	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)		actccgtctcaaaaaaaaaga	0.219													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	35488689	35488689	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35488689delG								ZNF770 (208235 upstream) : LOC723972 (40838 downstream)																							CGGGCTGTGTGGTAAGTATGC	0.483													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	36566253	36566253	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:36566253delA								ATPBD4 (727849 upstream) : C15orf41 (305559 downstream)																							tgacttgtgcaagcccagaaa	0.085													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	39809671	39809671	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:39809671delG								C15orf54 (262623 upstream) : THBS1 (63609 downstream)																							AACCAAATGTGGCAGTTTTGT	0.358													4	2	---	---	---	---	
DISP2	85455	broad.mit.edu	37	15	40649136	40649136	+	5'Flank	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40649136delG	uc001zlk.1	+							NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B						smoothened signaling pathway	integral to membrane				ovary(2)	2		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		aggcctattaggaagaaagag	0.000													4	2	---	---	---	---	
BNIP2	663	broad.mit.edu	37	15	59968819	59968822	+	Intron	DEL	TTCT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59968819_59968822delTTCT	uc010uhc.1	-						BNIP2_uc010uhb.1_Intron	NM_004330	NP_004321	Q12982	BNIP2_HUMAN	BCL2/adenovirus E1B 19kD interacting protein 2						anti-apoptosis|apoptosis|positive regulation of muscle cell differentiation	nuclear envelope|perinuclear region of cytoplasm	calcium ion binding|GTPase activator activity|protein binding			ovary(1)	1						ATGCTTATTATTCTTTCAAAATTA	0.324													4	2	---	---	---	---	
RORA	6095	broad.mit.edu	37	15	61335980	61335981	+	Intron	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:61335980_61335981insT	uc002agx.2	-							NM_134261	NP_599023	P35398	RORA_HUMAN	RAR-related orphan receptor A isoform a						positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			large_intestine(1)|ovary(1)	2						AAAGGGTTTTATTTTTTTTTAA	0.441													6	3	---	---	---	---	
MEGF11	84465	broad.mit.edu	37	15	66359212	66359213	+	Intron	DEL	GA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66359212_66359213delGA	uc002apm.2	-						MEGF11_uc002apl.2_Intron|MEGF11_uc002apn.1_Intron	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor							basolateral plasma membrane|integral to membrane				pancreas(1)	1						CAGCAATCAGGAGAGAGAGAGA	0.545													4	2	---	---	---	---	
CLN6	54982	broad.mit.edu	37	15	68546152	68546153	+	Intron	INS	-	CAAA	CAAA	rs140325975	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:68546152_68546153insCAAA	uc010ujz.1	-							NM_017882	NP_060352	Q9NWW5	CLN6_HUMAN	CLN6 protein						cell death|cholesterol metabolic process|ganglioside metabolic process|glycosaminoglycan metabolic process|lysosomal lumen acidification|positive regulation of proteolysis|protein catabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	protein homodimerization activity				0						tctataaatctcaagtaaacta	0.163													4	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	70152851	70152851	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70152851delT								C15orf50 (17546 upstream) : TLE3 (187692 downstream)																							CCCCATCTGCTTTAGCCGTTA	0.393													4	2	---	---	---	---	
TLE3	7090	broad.mit.edu	37	15	70377723	70377723	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70377723delA	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						GGAGAAAGGGAATCCACTGGC	0.502													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	70676561	70676561	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70676561delC								TLE3 (286305 upstream) : UACA (270334 downstream)																							TCATCCACATCCCCTTGCAGG	0.483													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	73153015	73153015	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73153015delT								ADPGK (76348 upstream) : NEO1 (191860 downstream)																							AAATTGAAAATTTTCCCTAAT	0.219													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	79135746	79135746	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79135746delA								ADAMTS7 (31973 upstream) : MORF4L1 (29426 downstream)																							ATTCTGAAGGAGGCTCATGTC	0.368													4	2	---	---	---	---	
SLC28A1	9154	broad.mit.edu	37	15	85463934	85463935	+	Intron	INS	-	GT	GT	rs12900399		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85463934_85463935insGT	uc002blg.2	+						SLC28A1_uc010upd.1_Intron|SLC28A1_uc010bnb.2_Intron|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Intron|SLC28A1_uc010upg.1_Intron	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1						nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			atctccaaggggtgtgtgtgtg	0.025													4	2	---	---	---	---	
SLC28A1	9154	broad.mit.edu	37	15	85483711	85483711	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85483711delA	uc002blg.2	+						SLC28A1_uc010bnb.2_Intron|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Intron|SLC28A1_uc010upg.1_Intron	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1						nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CATTATATACAAAAAAAAAGC	0.169													6	4	---	---	---	---	
NTRK3	4916	broad.mit.edu	37	15	88534381	88534381	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88534381delT	uc002bme.1	-						NTRK3_uc002bmh.2_Intron|NTRK3_uc002bmf.1_Intron|NTRK3_uc010upl.1_Intron|NTRK3_uc010bnh.1_Intron|NTRK3_uc002bmg.2_Intron|NTRK3_uc010bni.2_Intron	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			ATCCTCATCATTTTCCTACCT	0.433			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			4	2	---	---	---	---	
NTRK3	4916	broad.mit.edu	37	15	88608648	88608648	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88608648delA	uc002bme.1	-						NTRK3_uc002bmh.2_Intron|NTRK3_uc002bmf.1_Intron|NTRK3_uc010upl.1_Intron|NTRK3_uc010bnh.1_Intron|NTRK3_uc002bmg.2_Intron	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			CCCTGTCCCCAAATCAGGTGG	0.507			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			4	2	---	---	---	---	
SLCO3A1	28232	broad.mit.edu	37	15	92429156	92429156	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:92429156delG	uc002bqx.2	+						SLCO3A1_uc002bqy.2_Intron|SLCO3A1_uc010boc.1_Intron|SLCO3A1_uc002bqz.1_Intron	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,						sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			gttgaaatatgcttgatgtgg	0.000													4	2	---	---	---	---	
CHD2	1106	broad.mit.edu	37	15	93554941	93554941	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93554941delT	uc002bsp.2	+						CHD2_uc002bso.1_Intron	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2						regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			CATCATATCATTCCCCTGTTG	0.428													4	2	---	---	---	---	
IGF1R	3480	broad.mit.edu	37	15	99419544	99419544	+	Intron	DEL	A	-	-	rs72140443		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99419544delA	uc002bul.2	+						IGF1R_uc010urq.1_Intron|IGF1R_uc010bon.2_Intron	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor						anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	ATTAAGAGTTAAAAAAAAAAA	0.323													1	5	---	---	---	---	
LRRK1	79705	broad.mit.edu	37	15	101568122	101568122	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101568122delT	uc002bwr.2	+						LRRK1_uc010usb.1_Intron|LRRK1_uc010usc.1_Intron	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1						small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			cgtttctgccttccatccccc	0.269													4	2	---	---	---	---	
TARSL2	123283	broad.mit.edu	37	15	102216146	102216174	+	Intron	DEL	GGAACCGTACTGTGAAAAGGCAGCGCCGC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:102216146_102216174delGGAACCGTACTGTGAAAAGGCAGCGCCGC	uc002bxm.2	-						TARSL2_uc002bxl.2_Intron|TARSL2_uc010usi.1_Intron	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2						threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			AGTAGGCGAGGGAACCGTACTGTGAAAAGGCAGCGCCGCGCACAGGAGA	0.550													4	3	---	---	---	---	
A2BP1	54715	broad.mit.edu	37	16	7612021	7612022	+	Intron	INS	-	A	A	rs145430474	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7612021_7612022insA	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)		AGGAGATGAGGAAAAAAAAAAT	0.411													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	7962064	7962064	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7962064delT								A2BP1 (198724 upstream) : TMEM114 (657439 downstream)																							GCTTAATCAGTTTCACATGAA	0.348													4	2	---	---	---	---	
CARHSP1	23589	broad.mit.edu	37	16	8954515	8954518	+	Intron	DEL	CTAA	-	-	rs150531462		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8954515_8954518delCTAA	uc002czh.1	-						CARHSP1_uc002czi.1_Intron	NM_001042476	NP_001035941	Q9Y2V2	CHSP1_HUMAN	calcium-regulated heat-stable protein 1						intracellular signal transduction|regulation of mRNA stability|regulation of transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|P granule	DNA binding|mRNA 3'-UTR binding|phosphatase binding				0						AGGGAGAAGCCTAACTAACTCAGG	0.461													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	9324148	9324149	+	IGR	DEL	GT	-	-	rs2941300		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9324148_9324149delGT								C16orf72 (110603 upstream) : GRIN2A (523118 downstream)																							tttgtttttggttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	9614712	9614715	+	IGR	DEL	TCTA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9614712_9614715delTCTA								C16orf72 (401167 upstream) : GRIN2A (232552 downstream)																							tgtctatctgtctatctatctatc	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	12029533	12029533	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12029533delA								GSPT1 (19014 upstream) : TNFRSF17 (29431 downstream)																							CACATAGGATAAAAAAAAATC	0.259													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	12039535	12039535	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12039535delA								GSPT1 (29016 upstream) : TNFRSF17 (19429 downstream)																							actctgtcttaaaaaaaaaac	0.104													8	5	---	---	---	---	
PARN	5073	broad.mit.edu	37	16	14704328	14704328	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14704328delA	uc010uzd.1	-						PARN_uc010uzc.1_Intron|PARN_uc010uze.1_Intron|PARN_uc010uzf.1_Intron|PARN_uc010uzg.1_Intron	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation						female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2						agactgtctcaaaaaaaaaaa	0.144													4	4	---	---	---	---	
POLR3E	55718	broad.mit.edu	37	16	22324606	22324607	+	Intron	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:22324606_22324607insT	uc002dkk.2	+						POLR3E_uc002dkj.1_Intron|POLR3E_uc002dkm.2_Intron|POLR3E_uc010vbr.1_Intron|POLR3E_uc002dkl.2_Intron|POLR3E_uc010vbs.1_Intron|POLR3E_uc010vbt.1_Intron	NM_018119	NP_060589	Q9NVU0	RPC5_HUMAN	RNA polymerase III polypeptide E						innate immune response|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA-directed RNA polymerase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.012)		AGCAGGGCGAATTTGATGAGGA	0.574													4	2	---	---	---	---	
GSG1L	146395	broad.mit.edu	37	16	27954779	27954779	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27954779delA	uc002doz.2	-						GSG1L_uc010bya.1_Intron	NM_001109763	NP_001103233	Q6UXU4	GSG1L_HUMAN	GSG1-like isoform 1							integral to membrane				ovary(1)	1						aaccagacacaaaaaagtaca	0.070													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33537920	33537921	+	IGR	DEL	AG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33537920_33537921delAG								SLC6A10P (641457 upstream) : MIR1826 (427587 downstream)																							GTGTAAAAAAAGTCAAAGTACA	0.332													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33640580	33640580	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33640580delA								SLC6A10P (744117 upstream) : MIR1826 (324928 downstream)																							gaccacatggaaaaaaacttc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33941390	33941391	+	IGR	INS	-	T	T	rs148453508		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33941390_33941391insT								None (None upstream) : MIR1826 (24117 downstream)																							AATTTGTGGGATTTTTAAAAGC	0.317													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	50527659	50527659	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50527659delT								BRD7 (124830 upstream) : NKD1 (54582 downstream)																							ATCCATGAGCTTCCAATAGCC	0.493													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	51009315	51009318	+	IGR	DEL	TGTA	-	-	rs10597985		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51009315_51009318delTGTA								CYLD (173469 upstream) : SALL1 (160568 downstream)																							CTGATAAGAGTGTATGTAACATTG	0.422													4	2	---	---	---	---	
ATP6V0D1	9114	broad.mit.edu	37	16	67477272	67477274	+	Intron	DEL	CTT	-	-	rs143234002		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67477272_67477274delCTT	uc002ete.1	-						ATP6V0D1_uc010vjo.1_Intron|ATP6V0D1_uc010vjn.1_Intron	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit						ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		CTGACCTGAGCTTCTCCTGCCTC	0.542													7	4	---	---	---	---	
CTCF	10664	broad.mit.edu	37	16	67672222	67672222	+	3'UTR	DEL	T	-	-	rs11325766		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67672222delT	uc002etl.2	+	12					CTCF_uc010cek.2_3'UTR|CTCF_uc002etm.1_3'UTR	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor						chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		CCTGACTCCCTTTGCTTGGAG	0.418													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	74416555	74416555	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74416555delG	uc010vmt.1	+											RecName: Full=Nuclear pore complex-interacting protein-like 2; Flags: Precursor;																		GTGGTTTTCTGGGGGCTGAAC	0.358													4	2	---	---	---	---	
ADAMTS18	170692	broad.mit.edu	37	16	77359576	77359576	+	Intron	DEL	A	-	-	rs36036462		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:77359576delA	uc002ffc.3	-						ADAMTS18_uc010chc.1_Intron|ADAMTS18_uc002ffe.1_Intron	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TTATAGGGGGAAAAAAAAAAA	0.378													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	79352875	79352876	+	IGR	INS	-	A	A	rs140839621	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:79352875_79352876insA								WWOX (106312 upstream) : MAF (274870 downstream)																							AATTGAGAGGCAAAAATAAAAT	0.396													4	3	---	---	---	---	
CDH13	1012	broad.mit.edu	37	16	83737450	83737450	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:83737450delC	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)		GCCTCTGACTCCATAATAGGC	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	87280754	87280754	+	Intron	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:87280754delC	uc002fjt.1	-											Homo sapiens cDNA FLJ43761 fis, clone TESTI2048109.																		AAAGAGATCACCCCCATTTCT	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	6994000	6994000	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6994000delA								CLEC10A (10400 upstream) : ASGR2 (10641 downstream)																							gaacagagagaaaaaaaaaat	0.000													5	3	---	---	---	---	
DNAH2	146754	broad.mit.edu	37	17	7646597	7646597	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7646597delT	uc002giu.1	+						DNAH2_uc002git.2_Frame_Shift_Del_p.F763fs|DNAH2_uc010vuk.1_Frame_Shift_Del_p.F681fs	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GTCATTTTACTTTTTTTTTTC	0.338													4	2	---	---	---	---	
MYH10	4628	broad.mit.edu	37	17	8408461	8408461	+	Intron	DEL	C	-	-	rs67610561		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8408461delC	uc002gll.2	-						MYH10_uc002glm.2_Intron|MYH10_uc010cnx.2_Intron	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle						actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						tagattccagccccagccccc	0.234													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	8603710	8603711	+	IGR	DEL	TG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8603710_8603711delTG								MYH10 (69674 upstream) : CCDC42 (29536 downstream)																							GATGCTTCTATGTGTGTGTGTG	0.450													4	2	---	---	---	---	
TRIM16	10626	broad.mit.edu	37	17	15501597	15501597	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15501597delA	uc002gor.1	-						CDRT1_uc010vvy.1_Intron|CDRT1_uc010vvz.1_Intron|CDRT1_uc002gov.3_Intron|CDRT1_uc002gou.2_Intron|CDRT1_uc010cos.1_Intron			O95361	TRI16_HUMAN	SubName: Full=Putative uncharacterized protein; Flags: Fragment;						histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		atatcctattatttttttttt	0.000													8	4	---	---	---	---	
KCNJ12	3768	broad.mit.edu	37	17	21311305	21311306	+	Intron	INS	-	C	C	rs145540266		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21311305_21311306insC	uc002gyv.1	+							NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily						blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	cacccatccatcatccatccat	0.134										Prostate(3;0.18)			3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21406523	21406524	+	IGR	DEL	GT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21406523_21406524delGT								KCNJ12 (83344 upstream) : C17orf51 (25048 downstream)																							TGTTGACTCCgtgtgtgtgtgt	0.416													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21519738	21519739	+	IGR	INS	-	T	T	rs144084040	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21519738_21519739insT								C17orf51 (42007 upstream) : FAM27L (305631 downstream)																							tcttgttgccactgttccctag	0.124													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21520992	21520992	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21520992delA								C17orf51 (43261 upstream) : FAM27L (304378 downstream)																							ATTCTTTATGAATTTTTTTTA	0.090													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21562515	21562515	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21562515delT								C17orf51 (84784 upstream) : FAM27L (262855 downstream)																							GAATGATTTATTTTTTTTTAA	0.299													9	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	36378179	36378179	+	Intron	DEL	A	-	-	rs71904674		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36378179delA	uc002hpx.2	-											Homo sapiens cDNA FLJ43844 fis, clone TESTI4006308, highly  similar to Puromycin-sensitive aminopeptidase (EC 3.4.11.-).																		tataaatggcaaaaaaaaaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	37903881	37903881	+	IGR	DEL	A	-	-	rs11332137		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37903881delA								GRB7 (344 upstream) : IKZF3 (17320 downstream)																							ccctgtctggaaaaaaaaaGA	0.204													2	4	---	---	---	---	
THRA	7067	broad.mit.edu	37	17	38225338	38225338	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38225338delT	uc002htw.2	+						THRA_uc010cwp.1_Intron|THRA_uc002htv.2_Intron|THRA_uc002htx.2_Intron	NM_003250	NP_003241	P10827	THA_HUMAN	thyroid hormone receptor, alpha isoform 2						negative regulation of RNA polymerase II transcriptional preinitiation complex assembly|negative regulation of transcription initiation, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription from RNA polymerase II promoter	cytosol|nucleoplasm	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|TBP-class protein binding|thyroid hormone binding|thyroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding				0	Colorectal(19;0.000442)	Myeloproliferative disorder(1115;0.0255)			Levothyroxine(DB00451)|Liothyronine(DB00279)	tctccctccctctctccctcc	0.284													4	2	---	---	---	---	
GPATCH8	23131	broad.mit.edu	37	17	42541566	42541566	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42541566delA	uc002igw.1	-						GPATCH8_uc002igv.1_Intron|GPATCH8_uc010wiz.1_Intron	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8							intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		CACCTCCACCAAAAAAAAAAT	0.358													7	4	---	---	---	---	
CA10	56934	broad.mit.edu	37	17	49721536	49721536	+	Intron	DEL	T	-	-	rs112789467		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:49721536delT	uc002itw.3	-						CA10_uc002itu.3_Intron|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)			GTTCCCCCCCTTTTTTTTTTT	0.453													2	4	---	---	---	---	
CA10	56934	broad.mit.edu	37	17	49812919	49812919	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:49812919delA	uc002itw.3	-						CA10_uc002itu.3_Intron|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)			aaTTATTTGGAAAAAAATGTG	0.104													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	52838305	52838305	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:52838305delA								KIF2B (935732 upstream) : TOM1L1 (139747 downstream)																							ATGTCTGCAGAAAAAAAAAAT	0.383													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	54730804	54730804	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:54730804delA								NOG (57853 upstream) : C17orf67 (138471 downstream)																							tggttaaatgaaAAAAAAAGT	0.204													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	59758572	59758575	+	IGR	DEL	GACA	-	-	rs10601136		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59758572_59758575delGACA								NACA2 (90009 upstream) : BRIP1 (1410 downstream)																							tctggctggggacatagccaaacc	0.127													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	63297372	63297372	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63297372delC								RGS9 (73553 upstream) : AXIN2 (227313 downstream)																							CTCTAAGGGGCCCCCAGAGAT	0.547													4	2	---	---	---	---	
CCDC46	201134	broad.mit.edu	37	17	63848319	63848321	+	Intron	DEL	CCC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63848319_63848321delCCC	uc002jfl.2	-						CCDC46_uc010deo.2_Intron|CCDC46_uc002jfm.2_Intron|CCDC46_uc010dep.2_Intron	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a							centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			ctttccctctcccttccttcctt	0.039													9	4	---	---	---	---	
PRKCA	5578	broad.mit.edu	37	17	64703082	64703083	+	Intron	INS	-	G	G			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:64703082_64703083insG	uc002jfp.1	+						PRKCA_uc002jfo.1_Intron	NM_002737	NP_002728	P17252	KPCA_HUMAN	protein kinase C, alpha						activation of phospholipase C activity|energy reserve metabolic process|induction of apoptosis by extracellular signals|intracellular signal transduction|mRNA metabolic process|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of blood vessel endothelial cell migration|regulation of insulin secretion|response to interleukin-1|synaptic transmission	cytosol|endoplasmic reticulum|membrane fraction|nucleoplasm|plasma membrane	ATP binding|enzyme binding|histone kinase activity (H3-T6 specific)|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(1)|stomach(1)|lung(1)|breast(1)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(6;4.68e-09)		Phosphatidylserine(DB00144)|Vitamin E(DB00163)	TGTTTGTTGATGGGGAAACAAA	0.351													4	2	---	---	---	---	
PITPNC1	26207	broad.mit.edu	37	17	65645651	65645652	+	Intron	DEL	TG	-	-	rs67611020		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65645651_65645652delTG	uc002jgc.2	+						PITPNC1_uc002jgb.2_Intron	NM_012417	NP_036549	Q9UKF7	PITC1_HUMAN	phosphatidylinositol transfer protein,						signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding			skin(1)	1	all_cancers(12;3.03e-10)		BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)			aattagacactgtctatctgga	0.144													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	69725514	69725516	+	IGR	DEL	TTC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69725514_69725516delTTC								None (None upstream) : SOX9 (391645 downstream)																							TTTTCTTTCtttctttttttttt	0.202													10	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	69743078	69743079	+	IGR	DEL	TT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69743078_69743079delTT								None (None upstream) : SOX9 (374082 downstream)																							TCCTTGACTCTTATACACAAGC	0.455													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	70514803	70514803	+	Intron	DEL	C	-	-	rs113434423		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:70514803delC	uc002jix.2	-						uc002jiz.1_Intron					Homo sapiens cDNA FLJ20470 fis, clone KAT06815.																		CTCATTCAGTCCAAGCCTAAA	0.318													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	76486622	76486623	+	IGR	INS	-	GTCT	GTCT	rs148797625	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76486622_76486623insGTCT								DNAH17 (17766 upstream) : CYTH1 (183508 downstream)																							tttattcccaggtctctcaccc	0.050													9	6	---	---	---	---	
HRNBP3	146713	broad.mit.edu	37	17	77161037	77161037	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77161037delA	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)			tgccgggaagaaaatgaaccc	0.328													4	2	---	---	---	---	
HGS	9146	broad.mit.edu	37	17	79667398	79667398	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79667398delA	uc002kbg.2	+							NM_004712	NP_004703	O14964	HGS_HUMAN	hepatocyte growth factor-regulated tyrosine						cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of JAK-STAT cascade|regulation of protein catabolic process	cytosol|early endosome membrane|multivesicular body membrane	metal ion binding|protein domain specific binding			ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)			actccatctcaaaaaaaaaaa	0.209													5	4	---	---	---	---	
SLC25A10	1468	broad.mit.edu	37	17	79678093	79678094	+	5'Flank	INS	-	CTGATTTAAACAAATAGC	CTGATTTAAACAAATAGC	rs149485152	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79678093_79678094insCTGATTTAAACAAATAGC	uc002kbi.2	+						SLC25A10_uc010wut.1_Intron|SLC25A10_uc010dif.2_5'Flank|SLC25A10_uc010wuu.1_5'Flank	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;						gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	CCTCCAGTTGGCTACCTGccta	0.431													4	2	---	---	---	---	
FN3K	64122	broad.mit.edu	37	17	80696192	80696193	+	Intron	INS	-	G	G	rs140281589	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80696192_80696193insG	uc010wvs.1	+						FN3K_uc002kfw.1_5'UTR	NM_022158	NP_071441	Q9H479	FN3K_HUMAN	fructosamine 3 kinase						fructoselysine metabolic process		fructosamine-3-kinase activity				0	Breast(20;0.000523)|all_neural(118;0.0952)		BRCA - Breast invasive adenocarcinoma(99;0.0344)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			TCGTCTCCGACGGGGGGCCCCT	0.653													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	11328259	11328259	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11328259delA								FAM38B (626280 upstream) : GNAL (360877 downstream)																							TTCACTTGTTAAAAAAAAAAA	0.323													3	3	---	---	---	---	
IMPA2	3613	broad.mit.edu	37	18	11998927	11998927	+	Intron	DEL	G	-	-	rs60067478		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11998927delG	uc002kqp.1	+						IMPA2_uc002kqo.1_Intron|IMPA2_uc010dlb.1_Intron|IMPA2_uc002kqq.1_Intron	NM_014214	NP_055029	O14732	IMPA2_HUMAN	inositol(myo)-1(or 4)-monophosphatase 2						inositol phosphate dephosphorylation|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(2)	2					Lithium(DB01356)	TGcccccgccgcccccccccc	0.423													5	3	---	---	---	---	
TAF4B	6875	broad.mit.edu	37	18	23928354	23928354	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:23928354delA	uc002kvu.3	+						TAF4B_uc002kvs.3_Intron|TAF4B_uc002kvt.3_Intron	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding						transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			GAATAGAATGAATGTGACAAG	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	26303381	26303381	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:26303381delT								CDH2 (545936 upstream) : None (None downstream)																							actgtacaagttttttttttc	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	40024806	40024806	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40024806delT	uc002las.1	+						uc002lat.2_Intron|uc002lau.2_Intron					Homo sapiens hypothetical gene supported by BC011527; BC021928; BC011527; BC021928, mRNA (cDNA clone IMAGE:3872963), with apparent retained intron.																		AAAAAATGTGTTTTGGGAAGT	0.383													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	41350471	41350471	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:41350471delG								SYT4 (492856 upstream) : SETBP1 (909667 downstream)																							aaaagtgtgtggggggcagca	0.000													4	2	---	---	---	---	
KIAA1632	57724	broad.mit.edu	37	18	43460426	43460426	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43460426delA	uc002lbm.2	-						KIAA1632_uc010xcq.1_Intron|KIAA1632_uc010xcr.1_Intron|KIAA1632_uc010xcs.1_Intron|KIAA1632_uc002lbn.2_Intron	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724						autophagy						0						AGCGCTGCTGAAGCTGGTGGA	0.587											OREG0024951	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	2	---	---	---	---	
RNF165	494470	broad.mit.edu	37	18	43984048	43984048	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43984048delT	uc002lcb.1	+						RNF165_uc002lby.1_Intron|RNF165_uc010dnn.1_Intron	NM_152470	NP_689683	Q6ZSG1	RN165_HUMAN	ring finger protein 165								zinc ion binding				0				READ - Rectum adenocarcinoma(1;0.0873)		tgtttttacattcccatggaa	0.000													4	2	---	---	---	---	
HDHD2	84064	broad.mit.edu	37	18	44663014	44663014	+	Intron	DEL	T	-	-	rs144963110		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44663014delT	uc002lcs.2	-						HDHD2_uc002lct.2_Intron	NM_032124	NP_115500	Q9H0R4	HDHD2_HUMAN	haloacid dehalogenase-like hydrolase domain								hydrolase activity				0						AATACTTAGGtttttttttaa	0.284													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	51668878	51668878	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51668878delA								DCC (611096 upstream) : MBD2 (11697 downstream)																							AAGATTCATTAAAAAAAAAAT	0.313													3	3	---	---	---	---	
GRP	2922	broad.mit.edu	37	18	56893231	56893231	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56893231delT	uc002lhv.2	+						GRP_uc002lhu.2_Intron|GRP_uc002lhw.2_Intron	NM_002091	NP_002082	P07492	GRP_HUMAN	gastrin-releasing peptide isoform 1						neuropeptide signaling pathway	extracellular space	neuropeptide hormone activity				0		Colorectal(73;0.0946)				ATTGATGGGATTTTTTTTTTA	0.313													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	58095346	58095347	+	IGR	INS	-	A	A			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:58095346_58095347insA								MC4R (55345 upstream) : CDH20 (905641 downstream)																							AGTCAGATTGTAAAAAAGATGT	0.282													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	65533728	65533729	+	IGR	DEL	CT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:65533728_65533729delCT								DSEL (349761 upstream) : TMX3 (807198 downstream)																							agtttgttcactcacctgaccc	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	483251	483251	+	IGR	DEL	C	-	-	rs66469660		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:483251delC								ODF3L2 (8268 upstream) : MADCAM1 (13239 downstream)																							AGGGCCCCATCCCCCCCCAAC	0.642													3	3	---	---	---	---	
DAZAP1	26528	broad.mit.edu	37	19	1427140	1427140	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1427140delA	uc002lsn.2	+						DAZAP1_uc002lsm.2_Intron|DAZAP1_uc002lso.2_Intron|DAZAP1_uc002lsl.1_Intron	NM_018959	NP_061832	Q96EP5	DAZP1_HUMAN	DAZ associated protein 1 isoform b						cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleotide binding|RNA binding			breast(1)	1		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTGTGGTTTAAAATGAGCCT	0.493													4	2	---	---	---	---	
REEP6	92840	broad.mit.edu	37	19	1496507	1496510	+	Intron	DEL	TCTC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1496507_1496510delTCTC	uc002ltc.2	+							NM_138393	NP_612402	Q96HR9	REEP6_HUMAN	receptor accessory protein 6							integral to membrane					0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCTGGACCTGTCTCTCTCCACCTT	0.667													5	7	---	---	---	---	
ATP8B3	148229	broad.mit.edu	37	19	1794742	1794742	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1794742delG	uc002ltw.2	-						ATP8B3_uc002ltv.2_Intron|ATP8B3_uc002ltx.2_Intron	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3						ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		acctgagagtggggaagtcac	0.020													4	2	---	---	---	---	
KLF16	83855	broad.mit.edu	37	19	1854926	1854926	+	Intron	DEL	A	-	-	rs57596843		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1854926delA	uc002luc.2	-						KLF16_uc010xgt.1_Intron	NM_031918	NP_114124	Q9BXK1	KLF16_HUMAN	BTE-binding protein 4							nucleus	DNA binding|zinc ion binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TACAACCCTTACCCGCCCCCC	0.517													3	4	---	---	---	---	
C3	718	broad.mit.edu	37	19	6720074	6720075	+	Intron	INS	-	T	T	rs11569402		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6720074_6720075insT	uc002mfm.2	-							NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor						complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		GAGTCTCCAAACACCCCCAACC	0.455													4	2	---	---	---	---	
MUC16	94025	broad.mit.edu	37	19	9040740	9040740	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9040740delG	uc002mkp.2	-							NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16						cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGATGTTGTGTAAACAGTTA	0.418													4	2	---	---	---	---	
OR7G3	390883	broad.mit.edu	37	19	9237801	9237802	+	5'Flank	DEL	TC	-	-	rs144625616		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9237801_9237802delTC	uc010xkl.1	-							NM_001001958	NP_001001958	Q8NG95	OR7G3_HUMAN	olfactory receptor, family 7, subfamily G,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						tctttctctttctctctctttc	0.000													8	5	---	---	---	---	
MAST1	22983	broad.mit.edu	37	19	12953806	12953807	+	Intron	DEL	GT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12953806_12953807delGT	uc002mvm.2	+						MAST1_uc002mvk.2_Intron|MAST1_uc002mvl.2_Intron	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase						cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						GTGTGTCTTCGTGTGTGTGAAG	0.465													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	20633644	20633645	+	IGR	DEL	AA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:20633644_20633645delAA								ZNF826 (25882 upstream) : ZNF737 (87154 downstream)																							GATCTTCTGGAAAAAAAAAAAC	0.213													3	3	---	---	---	---	
ZNF429	353088	broad.mit.edu	37	19	21700500	21700500	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21700500delT	uc002nqd.1	+						ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415	Q86V71	ZN429_HUMAN	zinc finger protein 429						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ttcttttagatttttttttta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	31228009	31228009	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31228009delG								ZNF536 (179044 upstream) : DKFZp566F0947 (412774 downstream)																							TGCCACCCCAGGCCAAACGCC	0.527													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	32670631	32670632	+	IGR	DEL	TC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:32670631_32670632delTC								TSHZ3 (830441 upstream) : ZNF507 (165882 downstream)																							TAAACATTGTTCTCTCTCTCTC	0.495													4	2	---	---	---	---	
FCGBP	8857	broad.mit.edu	37	19	40384321	40384324	+	Intron	DEL	AGAA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40384321_40384324delAGAA	uc002omp.3	-							NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor							extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			gaggacacagagaaagaaatggga	0.088													7	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	43187554	43187554	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43187554delC								CEACAM8 (88472 upstream) : PSG3 (38241 downstream)																							aatctggccgcccccacccta	0.000													4	2	---	---	---	---	
PSG6	5675	broad.mit.edu	37	19	43579073	43579074	+	Intron	INS	-	TA	TA	rs61135205		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43579073_43579074insTA	uc002ovi.2	-						PSG6_uc010xwk.1_Intron|PSG2_uc002ovr.2_Intron|PSG2_uc002ovq.3_Intron|PSG2_uc010eiq.1_Intron|PSG2_uc002ovs.3_Intron|PSG2_uc002ovt.3_Intron			Q00889	PSG6_HUMAN	SubName: Full=Putative uncharacterized protein PSG6;						female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				GGTAATAGGTGTGAGGAAGAAA	0.515													4	3	---	---	---	---	
APOC1P1	342	broad.mit.edu	37	19	45431268	45431268	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45431268delA	uc010eju.2	+											Homo sapiens clone DKFZp781C1677 mRNA sequence.												0						GAACAGATTGAAAAAAAAAAC	0.527													9	4	---	---	---	---	
LMTK3	114783	broad.mit.edu	37	19	48994751	48994751	+	Frame_Shift_Del	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48994751delC	uc002pjk.2	-	14	4225	c.4225delG	c.(4225-4227)GACfs	p.D1409fs		NM_001080434	NP_001073903			lemur tyrosine kinase 3											lung(5)|central_nervous_system(1)	6		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		GGGTCCGTGTCCCCCTCGGGG	0.662													4	2	---	---	---	---	
DHDH	27294	broad.mit.edu	37	19	49443785	49443785	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49443785delA	uc002ple.1	+							NM_014475	NP_055290	Q9UQ10	DHDH_HUMAN	dimeric dihydrodiol dehydrogenase						carbohydrate metabolic process		binding|D-xylose 1-dehydrogenase (NADP+) activity|electron carrier activity|NAD(P)+ transhydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity				0		all_epithelial(76;5.29e-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;0.000158)|all cancers(93;0.000258)|Epithelial(262;0.0173)|GBM - Glioblastoma multiforme(486;0.0179)		ATTCAGCCGCAAAAAAAAAAA	0.303													4	2	---	---	---	---	
KLK10	5655	broad.mit.edu	37	19	51517592	51517592	+	3'UTR	DEL	C	-	-	rs139886586		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51517592delC	uc002puy.2	-	6					KLK10_uc002puz.2_3'UTR|KLK10_uc002pva.2_3'UTR	NM_145888	NP_665895	O43240	KLK10_HUMAN	kallikrein-related peptidase 10 preproprotein						cell cycle|proteolysis	extracellular region	serine-type endopeptidase activity			lung(2)	2		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00885)		atgacaatcaccatgaagatt	0.189													0	6	---	---	---	---	
CEACAM18	729767	broad.mit.edu	37	19	51985423	51985423	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51985423delT	uc002pwv.1	+							NM_001080405	NP_001073874	A8MTB9	CEA18_HUMAN	carcinoembryonic antigen-related cell adhesion							integral to membrane				skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		CCATACATTCTTTTTTTTTTA	0.413													4	2	---	---	---	---	
ZNF671	79891	broad.mit.edu	37	19	58234263	58234263	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58234263delA	uc002qpz.3	-						ZNF776_uc002qpx.2_Intron|ZNF671_uc010eug.2_Intron|ZNF671_uc010yhf.1_Intron	NM_024833	NP_079109	Q8TAW3	ZN671_HUMAN	zinc finger protein 671						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		accctgactcaaaaaaaaaaa	0.194													2	4	---	---	---	---	
ATRN	8455	broad.mit.edu	37	20	3604325	3604325	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3604325delA	uc002wim.2	+							NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1						inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						TGAGTTCCCTAAAAAAAAGCA	0.368													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	13181140	13181141	+	IGR	DEL	TC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13181140_13181141delTC								SPTLC3 (33729 upstream) : ISM1 (21277 downstream)																							TAGTGAAGTTTCTCTCTCTCTC	0.421													4	2	---	---	---	---	
MACROD2	140733	broad.mit.edu	37	20	15037013	15037013	+	Intron	DEL	C	-	-	rs73615566		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:15037013delC	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)				ACATGCCTTGCCCCAAGCACT	0.368													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	23456037	23456038	+	IGR	INS	-	GCA	GCA	rs143345610	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23456037_23456038insGCA								CST11 (22555 upstream) : CST8 (15728 downstream)																							AGGGCTGGGCTGCAGCTGGAGG	0.564													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	24745885	24745888	+	IGR	DEL	ACAC	-	-	rs34141414		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24745885_24745888delACAC								TMEM90B (98718 upstream) : CST7 (183978 downstream)																							ACACAGGAGAacacacacacacac	0.387													4	3	---	---	---	---	
FAM182A	284800	broad.mit.edu	37	20	26057515	26057516	+	Intron	INS	-	A	A	rs140712465	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26057515_26057516insA	uc010gdq.2	+							NR_026713				Homo sapiens cDNA FLJ38374 fis, clone FEBRA2002552.												0						agaaggagaacatttcttgatg	0.188													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26142398	26142398	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26142398delG								C20orf191 (47721 upstream) : MIR663 (46424 downstream)																							TCATGTTGGAGGGCGTGATTT	0.363													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26250582	26250583	+	IGR	INS	-	T	T	rs146065674		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26250582_26250583insT								MIR663 (61668 upstream) : None (None downstream)																							attattttggcttttttttctt	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29455506	29455506	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29455506delT								None (None upstream) : FRG1B (156373 downstream)																							ATAGGTTTTATTTCAGTGATT	0.124													4	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29593423	29593424	+	IGR	DEL	AT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29593423_29593424delAT								None (None upstream) : FRG1B (18455 downstream)																							ACAAATAGAAATAGAGAGATGG	0.312													11	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29602180	29602180	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29602180delT								None (None upstream) : FRG1B (9699 downstream)																							aatccacatatttacatgcaa	0.000													6	3	---	---	---	---	
EPB41L1	2036	broad.mit.edu	37	20	34707214	34707214	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34707214delA	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)					gaaggatcagaaagatggcca	0.025													4	2	---	---	---	---	
DSN1	79980	broad.mit.edu	37	20	35396636	35396636	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35396636delA	uc010gfr.2	-						DSN1_uc002xfz.2_Intron|DSN1_uc002xfy.3_Intron|DSN1_uc002xga.2_Intron|DSN1_uc010zvs.1_Intron|DSN1_uc002xgc.2_Intron|DSN1_uc002xgb.2_Intron	NM_001145316	NP_001138788	Q9H410	DSN1_HUMAN	DSN1, MIND kinetochore complex component,						cell division|chromosome segregation|mitotic prometaphase	cytosol|MIS12/MIND type complex|nucleus	protein binding			ovary(2)	2		Myeloproliferative disorder(115;0.00874)				ATCTAAACTTAAAAAAAAAAA	0.194													5	3	---	---	---	---	
PTPRT	11122	broad.mit.edu	37	20	40826364	40826364	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40826364delA	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron|PTPRT_uc010ggi.2_Intron	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				gaaaattttgaaaaaaaaaac	0.000													4	2	---	---	---	---	
ELMO2	63916	broad.mit.edu	37	20	45051079	45051079	+	Intron	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45051079delG	uc010zxs.1	-						uc002xry.2_Intron			Q96JJ3	ELMO2_HUMAN	SubName: Full=ELMO2 protein; SubName: Full=Engulfment and cell motility 2;						apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				tatttccataggcgcaggtgg	0.000													2	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	46724581	46724581	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:46724581delG								SULF2 (309221 upstream) : LOC284749 (264073 downstream)																							gagaggccgaggagggtggat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	47117489	47117490	+	IGR	INS	-	G	G	rs71337442		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47117489_47117490insG								LOC284749 (118108 upstream) : PREX1 (123303 downstream)																							GCAGGAACGGTGGGGGGGCTAT	0.634													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	51572477	51572480	+	IGR	DEL	TGAA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51572477_51572480delTGAA								ZFP64 (763953 upstream) : TSHZ2 (16397 downstream)																							taatatttgCtgaatgaatgaatg	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	52441385	52441386	+	IGR	DEL	CT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52441385_52441386delCT								ZNF217 (230584 upstream) : SUMO1P1 (49656 downstream)																							atctctggagctctctctctgc	0.035													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	57729108	57729108	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57729108delA								SLMO2 (111207 upstream) : ZNF831 (36967 downstream)																							AGCTAGTCATAAAAAAAGTGC	0.478													5	3	---	---	---	---	
ZNF512B	57473	broad.mit.edu	37	20	62596189	62596190	+	Intron	INS	-	TCC	TCC			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62596189_62596190insTCC	uc002yhl.1	-							NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CTCACCACTGTTCCCCGACCTG	0.614													5	5	---	---	---	---	
TPTE	7179	broad.mit.edu	37	21	10941532	10941533	+	Intron	INS	-	GTC	GTC			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10941532_10941533insGTC	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)		tggcTCTTTCAGTCGAGGGTAG	0.109													4	3	---	---	---	---	
TPTE	7179	broad.mit.edu	37	21	10986397	10986398	+	Intron	DEL	AG	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10986397_10986398delAG	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)		AAATCATAACAGGGGAAAATGT	0.337													4	2	---	---	---	---	
BAGE2	85319	broad.mit.edu	37	21	11043037	11043039	+	Intron	DEL	TGC	-	-	rs149525628		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11043037_11043039delTGC	uc002yit.1	-							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)		ttgctgttgttgctgttgttgtt	0.000													4	3	---	---	---	---	
USP16	10600	broad.mit.edu	37	21	30420097	30420097	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:30420097delT	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						TCCCCATTGCTTTTTTTTTTG	0.378													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	32131891	32131892	+	IGR	DEL	CA	-	-	rs57767614		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:32131891_32131892delCA								KRTAP21-1 (4195 upstream) : KRTAP8-1 (53124 downstream)																							TGCCAATACTCACTTCCAGGAC	0.356													4	2	---	---	---	---	
DOPEY2	9980	broad.mit.edu	37	21	37599843	37599843	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37599843delA	uc002yvg.2	+						DOPEY2_uc011aeb.1_Intron	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like						endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						agactctgtcaaaaaaaaaga	0.104													4	4	---	---	---	---	
DYRK1A	1859	broad.mit.edu	37	21	38845338	38845339	+	Intron	INS	-	T	T			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:38845338_38845339insT	uc002ywk.2	+						DYRK1A_uc002ywh.1_Intron|DYRK1A_uc002ywi.2_Intron|DYRK1A_uc002ywj.2_Intron|DYRK1A_uc002ywl.2_Intron|DYRK1A_uc002ywm.2_Intron	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation						nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						TTTGCattaaattttttttttt	0.297													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	42385912	42385912	+	IGR	DEL	G	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:42385912delG								DSCAM (166873 upstream) : C21orf130 (127515 downstream)																							CACCACACATGGGCACTATAC	0.279													4	2	---	---	---	---	
COL18A1	80781	broad.mit.edu	37	21	46903980	46903980	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46903980delA	uc011afs.1	+						COL18A1_uc002zhg.2_Intron|COL18A1_uc002zhi.2_Intron	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor						cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		acacacacacacttctccagc	0.000													3	3	---	---	---	---	
COL18A1	80781	broad.mit.edu	37	21	46903982	46903982	+	Intron	DEL	T	-	-	rs36182034	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46903982delT	uc011afs.1	+						COL18A1_uc002zhg.2_Intron|COL18A1_uc002zhi.2_Intron	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor						cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		acacacacacttctccagcat	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	48015134	48015134	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:48015134delA								DIP2A (25208 upstream) : S100B (3397 downstream)																							TTCCCTGAGGAAAAAAATCAC	0.488													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	17236536	17236536	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17236536delC								psiTPTE22 (57015 upstream) : XKR3 (27777 downstream)																							tttccacacacctACAGTGCA	0.164													4	2	---	---	---	---	
GGT1	2678	broad.mit.edu	37	22	25016169	25016170	+	Intron	INS	-	T	T	rs28418841	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:25016169_25016170insT	uc003aan.1	+						GGT1_uc003aas.1_Intron|GGT1_uc003aat.1_Intron|GGT1_uc003aau.1_Intron|GGT1_uc003aav.1_Intron|GGT1_uc003aaw.1_Intron|GGT1_uc003aax.1_Intron	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor						glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	aaaaaaaaaaaaTCTTTCCTCC	0.277													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	27609920	27609920	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:27609920delA								MIAT (494971 upstream) : MN1 (534346 downstream)																							CCCAGAGGGGAAACCGAGGCA	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	27755512	27755512	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:27755512delA								MIAT (640563 upstream) : MN1 (388754 downstream)																							agatggggtcaaggttgaagt	0.005													0	6	---	---	---	---	
EWSR1	2130	broad.mit.edu	37	22	29696337	29696337	+	3'UTR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29696337delT	uc003aet.2	+	17					EWSR1_uc003aev.2_3'UTR|EWSR1_uc003aew.2_3'UTR|EWSR1_uc003aex.2_3'UTR|EWSR1_uc003aey.2_3'UTR|EWSR1_uc003aez.2_3'UTR	NM_005243	NP_005234	Q01844	EWS_HUMAN	Ewing sarcoma breakpoint region 1 isoform 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	calmodulin binding|nucleotide binding|RNA binding|zinc ion binding		EWSR1/FLI1(2266)|EWSR1/ATF1(323)|EWSR1/WT1(231)|EWSR1/ERG(162)|EWSR1/NR4A3(140)|EWSR1/DDIT3(43)|EWSR1/CREB1(42)|EWSR1/FEV(10)|EWSR1/POU5F1(10)|EWSR1/ETV1(7)|EWSR1/ETV4(6)|EWSR1/ZNF384(4)|EWSR1/PBX1(3)|EWSR1/SP3(3)|EWSR1/PATZ1(2)	bone(2526)|soft_tissue(702)|skin(8)|autonomic_ganglia(4)|haematopoietic_and_lymphoid_tissue(4)|salivary_gland(2)|central_nervous_system(2)|NS(2)|pancreas(2)|lung(1)|ovary(1)	3254						GTGTGCGGAGTTTTTTTTTCT	0.353			T	FLI1|ERG|ZNF278|NR4A3|FEV|ATF1|ETV1|ETV4|WT1|ZNF384|CREB1|POU5F1| PBX1	Ewing sarcoma| desmoplastic small round cell tumor |ALL|clear cell sarcoma|sarcoma|myoepithelioma								4	2	---	---	---	---	
RBM9	23543	broad.mit.edu	37	22	36293165	36293165	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36293165delT	uc003aon.3	-						RBM9_uc010gwu.2_Intron|RBM9_uc003aoo.3_Intron	NM_001082578	NP_001076047	O43251	RFOX2_HUMAN	RNA binding motif protein 9 isoform 5						estrogen receptor signaling pathway|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of cell proliferation|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding|transcription corepressor activity|transcription factor binding				0						ACACTCATTCTTTTTTTTTCT	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	43494498	43494498	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43494498delA								TTLL1 (9064 upstream) : BIK (12259 downstream)																							actctgtctcaaaaaaaagaa	0.154													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	44211128	44211128	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44211128delC								EFCAB6 (3010 upstream) : SULT4A1 (9259 downstream)																							gaatggggctcctgctggcca	0.204													4	2	---	---	---	---	
SULT4A1	25830	broad.mit.edu	37	22	44256582	44256582	+	Intron	DEL	A	-	-	rs34300189		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44256582delA	uc003bee.1	-						SULT4A1_uc003bef.1_Intron|SULT4A1_uc011aqb.1_Intron	NM_014351	NP_055166	Q9BR01	ST4A1_HUMAN	sulfotransferase family 4A, member 1						3'-phosphoadenosine 5'-phosphosulfate metabolic process|steroid metabolic process|xenobiotic metabolic process	cytosol	sulfotransferase activity				0		Ovarian(80;0.024)|all_neural(38;0.0416)		Colorectal(1;0.00242)|READ - Rectum adenocarcinoma(1;0.0419)		CTGGGCTACCAGAAGTCCACT	0.398													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	45476158	45476160	+	IGR	DEL	CAT	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45476158_45476160delCAT								PHF21B (70349 upstream) : NUP50 (83566 downstream)																							tcatcatcaccatcatcatcatc	0.197													3	3	---	---	---	---	
TBC1D22A	25771	broad.mit.edu	37	22	47313958	47313958	+	Intron	DEL	T	-	-	rs59958516		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47313958delT	uc003bib.2	+						TBC1D22A_uc010haf.2_Intron|TBC1D22A_uc003bic.2_Intron|TBC1D22A_uc003bie.2_Intron|TBC1D22A_uc003bid.2_Intron|TBC1D22A_uc010hag.2_Intron|TBC1D22A_uc003bif.2_Intron|uc003big.3_5'Flank	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A							intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		gaaatggagatcgtaatggca	0.010													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	50346232	50346233	+	IGR	INS	-	TG	TG	rs146588670	by1000genomes	TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50346232_50346233insTG								CRELD2 (25046 upstream) : PIM3 (7910 downstream)																							CCCGTGgtgtctgtgtgtgtgt	0.228													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	990655	990655	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:990655delA								SHOX (370510 upstream) : CRLF2 (324232 downstream)																							TGTGGTCattaaaaaaaaaaa	0.363													4	2	---	---	---	---	
GPM6B	2824	broad.mit.edu	37	X	13890787	13890787	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:13890787delA	uc004cvx.2	-						GPM6B_uc011min.1_Intron|GPM6B_uc004cwa.2_Intron	NM_001001994	NP_001001994	Q13491	GPM6B_HUMAN	glycoprotein M6B isoform 4						cell differentiation|nervous system development	integral to membrane					0						ATAGAGTAAGAAAAAAAAAAA	0.443													6	4	---	---	---	---	
BEND2	139105	broad.mit.edu	37	X	18184269	18184269	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18184269delT	uc004cyj.3	-							NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2											ovary(3)|kidney(1)|central_nervous_system(1)	5						cctgctaacattttattaacc	0.010													4	2	---	---	---	---	
MAP7D2	256714	broad.mit.edu	37	X	20048711	20048711	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:20048711delT	uc004czr.1	-						MAP7D2_uc004czq.1_Intron|MAP7D2_uc011mji.1_Intron|MAP7D2_uc010nfo.1_Intron|MAP7D2_uc011mjj.1_Intron	NM_152780	NP_689993	Q96T17	MA7D2_HUMAN	MAP7 domain containing 2											ovary(2)|breast(1)	3						CCCAAAAGACTTTTTTCCTCC	0.473													4	2	---	---	---	---	
DCAF8L2	347442	broad.mit.edu	37	X	27764776	27764776	+	5'Flank	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:27764776delT	uc011mjy.1	+							NM_001136533	NP_001130005			DDB1 and CUL4 associated factor 8-like 2											central_nervous_system(1)|pancreas(1)	2						GCAGTCTGGATGCTGCGAGGC	0.512													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	35078085	35078085	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:35078085delT								FAM47B (115051 upstream) : MAGEB16 (738374 downstream)																							CAGCACCTTCTCCCACCCCTA	0.522													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	49869416	49869416	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:49869416delT								CLCN5 (5524 upstream) : AKAP4 (85995 downstream)																							gcacagtatcttttttttttt	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	53065138	53065139	+	IGR	DEL	TA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53065138_53065139delTA								FAM156A (127555 upstream) : GPR173 (13367 downstream)																							agagagatcctatcttctcatc	0.089													4	2	---	---	---	---	
LOC92249	92249	broad.mit.edu	37	X	62657076	62657076	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:62657076delT	uc004dvg.2	-						LOC92249_uc004dvh.2_Intron|LOC92249_uc004dvi.2_Intron	NR_015353				Homo sapiens cDNA FLJ10894 fis, clone NT2RP4002888, highly similar to Homo sapiens mRNA; cDNA DKFZp434F172.												0						TTGAGAAAGATTACTGgcttt	0.114													4	2	---	---	---	---	
NONO	4841	broad.mit.edu	37	X	70512052	70512052	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:70512052delT	uc004dzo.2	+						BCYRN1_uc011mpt.1_Intron|NONO_uc004dzn.2_Intron|NONO_uc004dzp.2_Intron|NONO_uc011mpv.1_Intron|NONO_uc004dzq.2_5'Flank	NM_001145408	NP_001138880	Q15233	NONO_HUMAN	non-POU domain containing, octamer-binding						DNA recombination|DNA repair|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nuclear matrix|paraspeckles	DNA binding|identical protein binding|nucleotide binding|RNA binding		NONO/TFE3(2)	ovary(2)|kidney(2)	4	Renal(35;0.156)					CCTTTGGAACttttttttttt	0.174			T	TFE3	papillary renal cancer								4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	93467742	93467742	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:93467742delA								FAM133A (500481 upstream) : MIR548M (850398 downstream)																							TGTATGTTGGAAAACCACACT	0.353													4	2	---	---	---	---	
DIAPH2	1730	broad.mit.edu	37	X	96850559	96850562	+	Intron	DEL	TTTC	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:96850559_96850562delTTTC	uc004efu.3	+							NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156						cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						CACATtttcttttctttctttctt	0.167													4	3	---	---	---	---	
CSTF2	1478	broad.mit.edu	37	X	100077596	100077596	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:100077596delT	uc004egh.2	+						CSTF2_uc010nnd.2_Intron|CSTF2_uc004egi.2_Intron	NM_001325	NP_001316	P33240	CSTF2_HUMAN	cleavage stimulation factor subunit 2						mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cleavage body|mRNA cleavage and polyadenylation specificity factor complex	nucleotide binding|protein binding|protein binding|RNA binding			skin(1)	1						tttttataaattttttttCAA	0.368													4	2	---	---	---	---	
DRP2	1821	broad.mit.edu	37	X	100474959	100474961	+	5'UTR	DEL	GGA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:100474959_100474961delGGA	uc004egz.2	+	1					DRP2_uc011mrh.1_5'UTR	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2						central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						CTCTgagaggggaggaggaggag	0.360													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	108982864	108982864	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:108982864delA								ACSL4 (6243 upstream) : TMEM164 (262999 downstream)																							TCTAAAATTGAAAAAAAAAAT	0.353													3	3	---	---	---	---	
LRCH2	57631	broad.mit.edu	37	X	114449137	114449137	+	Intron	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:114449137delA	uc010nqe.2	-						LRCH2_uc004epz.2_Intron	NM_020871	NP_065922	Q5VUJ6	LRCH2_HUMAN	leucine-rich repeats and calponin homology (CH)											ovary(1)	1						CAGCAGAGAGAAAAAAACAAC	0.323													4	2	---	---	---	---	
CUL4B	8450	broad.mit.edu	37	X	119660918	119660918	+	Intron	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119660918delT	uc004esw.2	-						CUL4B_uc010nqq.2_Intron|CUL4B_uc004esv.2_Intron	NM_003588	NP_003579	Q13620	CUL4B_HUMAN	cullin 4B isoform 1						cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3						TTGAAGAttcttttttttttt	0.100													10	7	---	---	---	---	
RBMX	27316	broad.mit.edu	37	X	135960905	135960906	+	Intron	DEL	AA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135960905_135960906delAA	uc004fae.1	-						RBMX_uc011mwf.1_Intron|RBMX_uc004fad.1_Intron|RBMX_uc011mwg.1_Intron|RBMX_uc004faf.1_Intron|RBMX_uc010nsf.1_Intron|RBMX_uc004fag.1_Intron	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1							catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					ggagactatcaaaaaaaaaaaa	0.144													4	3	---	---	---	---	
GPR101	83550	broad.mit.edu	37	X	136115674	136115674	+	5'Flank	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:136115674delA	uc011mwh.1	-							NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101							integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					cagaaaaagcaaaaaataata	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	140757920	140757920	+	IGR	DEL	A	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:140757920delA								SPANXC (85060 upstream) : SPANXE (27649 downstream)																							CCAAAAAATGAAAAAAAAAAT	0.299													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	140866810	140866811	+	IGR	DEL	GA	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:140866810_140866811delGA								SPANXE (80155 upstream) : MAGEC3 (59291 downstream)																							GGAGACAGACGAGAGAGAGAGA	0.450													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	152064040	152064041	+	IGR	INS	-	C	C			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:152064040_152064041insC								NSDHL (26133 upstream) : ZNF185 (18956 downstream)																							GAGGCAGGCAGCAGCCACCACA	0.337													4	2	---	---	---	---	
ZNF275	10838	broad.mit.edu	37	X	152615571	152615571	+	3'UTR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:152615571delT	uc004fhg.1	+	5					ZNF275_uc011mym.1_3'UTR|ZNF275_uc011myn.1_3'UTR			A6NFS0	A6NFS0_HUMAN	SubName: Full=cDNA FLJ16723 fis, clone UTERU3004418, highly similar to Zinc finger protein 275; SubName: Full=Putative uncharacterized protein ZNF275;							intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CACATCCTCCTTTCAGCCGGT	0.493													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	9940533	9940533	+	IGR	DEL	C	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:9940533delC								TTTY22 (289679 upstream) : None (None downstream)																							CTGGTTTGCTCAAATTTTTTT	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	9992109	9992109	+	IGR	DEL	T	-	-			TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:9992109delT								TTTY22 (341255 upstream) : None (None downstream)																							gggtttacagtttttctcaaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13601466	13601467	+	IGR	INS	-	T	T	rs112972965		TCGA-B8-5551-01A-01D-1534-10	TCGA-B8-5551-10A-01D-1535-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13601466_13601467insT								None (None upstream) : None (None downstream)																							AGAGCAGGCTCTTGCCCACATC	0.490													9	6	---	---	---	---	
