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
CHD5	26038	broad.mit.edu	37	1	6169927	6169927	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6169927C>T	uc001amb.1	-	38	5606	c.5506G>A	c.(5506-5508)GCC>ACC	p.A1836T	CHD5_uc001alz.1_Missense_Mutation_p.A693T|CHD5_uc001ama.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1836					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TGGCTCTCGGCGAGGCACTCC	0.662													28	18	---	---	---	---	PASS
RCC2	55920	broad.mit.edu	37	1	17740092	17740092	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17740092C>A	uc001bal.2	-	8	1195	c.1148G>T	c.(1147-1149)GGG>GTG	p.G383V	RCC2_uc001bam.2_Missense_Mutation_p.G383V	NM_001136204	NP_001129676	Q9P258	RCC2_HUMAN	regulator of chromosome condensation 2	383	RCC1 5.				cell division|mitotic prometaphase	chromosome, centromeric region|cytosol|microtubule|nucleolus|spindle					0		Colorectal(325;0.000147)|Breast(348;0.00122)|Renal(390;0.00145)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;7.69e-06)|COAD - Colon adenocarcinoma(227;1.19e-05)|Kidney(64;0.000189)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.0135)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)		AGCCCCACGCCCAGGGAAGTC	0.587													5	59	---	---	---	---	PASS
ARID1A	8289	broad.mit.edu	37	1	27105921	27105921	+	Nonsense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27105921G>A	uc001bmv.1	+	20	5905	c.5532G>A	c.(5530-5532)TGG>TGA	p.W1844*	ARID1A_uc001bmu.1_Nonsense_Mutation_p.W1627*|ARID1A_uc001bmx.1_Nonsense_Mutation_p.W690*|ARID1A_uc009vsm.1_Nonsense_Mutation_p.W172*|ARID1A_uc009vsn.1_Nonsense_Mutation_p.W86*	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1844					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TGCTGCACTGGCGGATTGGTG	0.577			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								41	15	---	---	---	---	PASS
FAM183A	440585	broad.mit.edu	37	1	43613721	43613721	+	Silent	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43613721C>A	uc009vwo.2	+	1	128	c.99C>A	c.(97-99)CTC>CTA	p.L33L		NM_001101376	NP_001094846	A6NL82	F183A_HUMAN	hCG23177	33										ovary(3)	3						CCCAGAAACTCTACACGCAGT	0.607													4	29	---	---	---	---	PASS
ERI3	79033	broad.mit.edu	37	1	44804965	44804965	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44804965C>A	uc001clt.2	-	3	482	c.241G>T	c.(241-243)GCA>TCA	p.A81S	ERI3_uc010okv.1_Intron|ERI3_uc009vxg.2_Missense_Mutation_p.A81S|ERI3_uc010okw.1_Missense_Mutation_p.A3S|ERI3_uc001clu.2_Missense_Mutation_p.A3S	NM_024066	NP_076971	O43414	ERI3_HUMAN	prion protein interacting protein	81						intracellular	exonuclease activity|metal ion binding|nucleic acid binding			ovary(2)|large_intestine(1)	3						TGTAAAGGTGCTAGCATTGAA	0.353													61	58	---	---	---	---	PASS
SSBP3	23648	broad.mit.edu	37	1	54722846	54722846	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:54722846G>A	uc001cxe.2	-	7	759	c.461C>T	c.(460-462)CCG>CTG	p.P154L	SSBP3_uc001cxf.2_Intron|SSBP3_uc001cxg.2_Missense_Mutation_p.P127L	NM_145716	NP_663768	Q9BWW4	SSBP3_HUMAN	single stranded DNA binding protein 3 isoform a	154	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	single-stranded DNA binding				0						TGCGTATCGCGGTGACATAAA	0.517													4	3	---	---	---	---	PASS
SGIP1	84251	broad.mit.edu	37	1	67147840	67147840	+	Missense_Mutation	SNP	G	A	A	rs143518805	byFrequency	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67147840G>A	uc001dcr.2	+	15	1320	c.1103G>A	c.(1102-1104)CGC>CAC	p.R368H	SGIP1_uc010opd.1_Intron|SGIP1_uc001dcs.2_Intron|SGIP1_uc001dct.2_Intron|SGIP1_uc009wat.2_Missense_Mutation_p.R135H	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	368	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						GGGCCTCCTCGCAATGTACTA	0.552													7	73	---	---	---	---	PASS
CTTNBP2NL	55917	broad.mit.edu	37	1	112999055	112999055	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:112999055C>A	uc001ebx.2	+	6	1169	c.941C>A	c.(940-942)ACA>AAA	p.T314K	CTTNBP2NL_uc001ebz.2_5'Flank	NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	314						actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTTTGCCAAACAGAGAGTTTT	0.483													32	99	---	---	---	---	PASS
ASPM	259266	broad.mit.edu	37	1	197069780	197069780	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197069780C>A	uc001gtu.2	-	18	8858	c.8601G>T	c.(8599-8601)CAG>CAT	p.Q2867H	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.Q715H	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2867	IQ 32.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TAAAATAATGCTGTAAAGTGA	0.393													20	8	---	---	---	---	PASS
CDK18	5129	broad.mit.edu	37	1	205496919	205496919	+	Intron	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205496919C>T	uc001hcr.2	+						CDK18_uc001hcp.2_Intron|CDK18_uc001hcq.2_Intron|CDK18_uc010prj.1_Intron|CDK18_uc001hcs.2_Intron|CDK18_uc009xbm.1_Intron|CDK18_uc001hct.2_5'Flank	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a								ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						CCCCCTCCCCCAGATTTTCAT	0.627													17	20	---	---	---	---	PASS
OR2M2	391194	broad.mit.edu	37	1	248343383	248343383	+	Silent	SNP	G	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248343383G>C	uc010pzf.1	+	1	96	c.96G>C	c.(94-96)CTG>CTC	p.L32L		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TTCTGGTCCTGGGCATCTTTT	0.512													71	62	---	---	---	---	PASS
RNF144A	9781	broad.mit.edu	37	2	7137169	7137169	+	Missense_Mutation	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7137169T>C	uc002qys.2	+	3	554	c.112T>C	c.(112-114)TGC>CGC	p.C38R	RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	38	RING-type 1; atypical.					Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		CATAGCCCAGTGCCAATGCAT	0.493													25	50	---	---	---	---	PASS
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48818999	48818999	+	Intron	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48818999A>G	uc010yol.1	+						STON1_uc002rwo.3_Intron|STON1_uc010fbm.2_Intron|STON1-GTF2A1L_uc002rwp.1_Intron|STON1_uc002rwr.2_Intron|STON1_uc002rwq.2_Intron	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1						endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ATCCAGGTACATCCCAAAACT	0.388													17	22	---	---	---	---	PASS
ALMS1	7840	broad.mit.edu	37	2	73826590	73826590	+	Silent	SNP	A	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73826590A>C	uc002sje.1	+	19	11724	c.11613A>C	c.(11611-11613)TCA>TCC	p.S3871S	ALMS1_uc002sjf.1_Silent_p.S3827S|ALMS1_uc002sjh.1_Silent_p.S3257S	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3869					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TCCTGAGCTCAAACTCTACTT	0.318													14	123	---	---	---	---	PASS
C2orf55	343990	broad.mit.edu	37	2	99454634	99454634	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99454634C>T	uc002szf.1	-	3	481	c.187G>A	c.(187-189)GTC>ATC	p.V63I		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	63											0						ATGGCAATGACCTCATTCCTC	0.473													4	22	---	---	---	---	PASS
HS6ST1	9394	broad.mit.edu	37	2	129026360	129026360	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:129026360C>A	uc002tpt.3	-	2	646	c.612G>T	c.(610-612)TGG>TGT	p.W204C		NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	204	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		ACGACGTCTTCCACGTGGCAC	0.642													9	21	---	---	---	---	PASS
THSD7B	80731	broad.mit.edu	37	2	138030108	138030108	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138030108G>A	uc002tva.1	+	10	2179	c.2179G>A	c.(2179-2181)GCC>ACC	p.A727T	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.A617T	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TTCAGGAAATGCCACAGTAAA	0.383													11	21	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	142004811	142004811	+	Silent	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:142004811A>T	uc002tvj.1	-	5	1548	c.576T>A	c.(574-576)TCT>TCA	p.S192S	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	192	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).				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)		TAGCCTTGCAAGATCTGTTGT	0.388										TSP Lung(27;0.18)			16	37	---	---	---	---	PASS
MBD5	55777	broad.mit.edu	37	2	149240909	149240909	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:149240909A>G	uc002twm.3	+	10	3737	c.2749A>G	c.(2749-2751)AGC>GGC	p.S917G	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.S917G|MBD5_uc002two.2_5'Flank|MBD5_uc002twp.2_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	917						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		CTTGAACCCCAGCCTCCTCAG	0.468													52	83	---	---	---	---	PASS
UPP2	151531	broad.mit.edu	37	2	158991249	158991249	+	Intron	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158991249T>C	uc002tzp.2	+						UPP2_uc002tzo.2_Intron	NM_173355	NP_775491	O95045	UPP2_HUMAN	uridine phosphorylase 2 isoform a						nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|uridine metabolic process	cytosol|type III intermediate filament	uridine phosphorylase activity				0						TTGTGCTAATTGCTCTTCTAG	0.448													18	33	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168106268	168106268	+	Missense_Mutation	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168106268T>C	uc002udx.2	+	8	8384	c.8366T>C	c.(8365-8367)ATA>ACA	p.I2789T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I2614T|XIRP2_uc010fpq.2_Missense_Mutation_p.I2567T|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.I135T	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2614					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ACAGAATCCATACAGAAGAAC	0.408													38	48	---	---	---	---	PASS
ITGA6	3655	broad.mit.edu	37	2	173356152	173356152	+	Splice_Site	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:173356152G>T	uc002uhp.1	+	23	3093	c.2890_splice	c.e23-1	p.E964_splice	ITGA6_uc010zdy.1_Splice_Site_p.E845_splice|ITGA6_uc002uho.1_Splice_Site_p.E964_splice|ITGA6_uc010fqm.1_Splice_Site_p.E595_splice	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a						blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			TCTCCAAACAGGAATATTCCA	0.463													4	41	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179393645	179393645	+	Silent	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179393645T>C	uc010zfg.1	-	309	99353	c.99129A>G	c.(99127-99129)GCA>GCG	p.A33043A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.A26738A|TTN_uc010zfi.1_Silent_p.A26671A|TTN_uc010zfj.1_Silent_p.A26546A|TTN_uc002umq.2_Silent_p.A60A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33970							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAGTAGAAAATGCTTTAATCT	0.423													18	58	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179571295	179571295	+	Missense_Mutation	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179571295T>C	uc010zfg.1	-	99	25798	c.25574A>G	c.(25573-25575)TAC>TGC	p.Y8525C	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Y5186C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9452							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CACGCATCGGTATAACCCAGA	0.413													109	87	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179665420	179665420	+	Intron	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179665420A>T	uc002und.2	-						TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002unb.2_Intron			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.								ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGCGGGGACAAGAGAACAAA	0.493													18	82	---	---	---	---	PASS
ATG7	10533	broad.mit.edu	37	3	11400062	11400062	+	Silent	SNP	C	A	A	rs142674226		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:11400062C>A	uc003bwc.2	+	13	1572	c.1455C>A	c.(1453-1455)GCC>GCA	p.A485A	ATG7_uc003bwd.2_Silent_p.A485A|ATG7_uc011aum.1_Silent_p.A446A	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	485					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						GGCTTCCTGCCGTCATTGCTG	0.522													3	16	---	---	---	---	PASS
GRM2	2912	broad.mit.edu	37	3	51747147	51747147	+	Missense_Mutation	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51747147T>C	uc010hlv.2	+	3	1348	c.1109T>C	c.(1108-1110)GTG>GCG	p.V370A	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	370	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	CTCCGGGCTGTGCCCTTTGAG	0.607													14	11	---	---	---	---	PASS
ROBO2	6092	broad.mit.edu	37	3	77530373	77530373	+	Intron	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:77530373A>T	uc003dpy.3	+						ROBO2_uc003dpz.2_Intron|ROBO2_uc011bgj.1_Intron|ROBO2_uc011bgk.1_Intron	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2						apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		TGTCTTTGGTAAAACTTTCTT	0.343													20	14	---	---	---	---	PASS
FILIP1L	11259	broad.mit.edu	37	3	99567816	99567816	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:99567816G>A	uc003dtm.2	-	5	3167	c.2704C>T	c.(2704-2706)CTT>TTT	p.L902F	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Missense_Mutation_p.L902F|FILIP1L_uc010hpf.2_Missense_Mutation_p.L478F|FILIP1L_uc010hpg.2_Missense_Mutation_p.L662F|FILIP1L_uc003dtn.2_Missense_Mutation_p.L662F|FILIP1L_uc003dtp.1_Missense_Mutation_p.L662F	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	902						cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						TTTATATGAAGTGGCTGCCCA	0.463													88	83	---	---	---	---	PASS
TFG	10342	broad.mit.edu	37	3	100447602	100447602	+	Silent	SNP	C	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100447602C>G	uc003due.2	+	4	764	c.315C>G	c.(313-315)CTC>CTG	p.L105L	TFG_uc003duf.2_Silent_p.L105L|TFG_uc003dug.2_Silent_p.L105L|TFG_uc003duh.2_Silent_p.L105L|TFG_uc003dui.2_Silent_p.L105L	NM_006070	NP_006061	Q92734	TFG_HUMAN	TRK-fused	105	Potential.				positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm	signal transducer activity		TFG/ALK(7)	haematopoietic_and_lymphoid_tissue(7)|lung(2)|large_intestine(1)|prostate(1)	11						TGAAATATCTCCGTCGAGAAC	0.368			T	NTRK1|ALK	papillary thyroid|ALCL|NSCLC								24	77	---	---	---	---	PASS
KIAA2018	205717	broad.mit.edu	37	3	113377278	113377278	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113377278G>A	uc003eam.2	-	7	3662	c.3251C>T	c.(3250-3252)GCC>GTC	p.A1084V	KIAA2018_uc003eal.2_Missense_Mutation_p.A1028V	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1084					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						GGGAGAGTCGGCCTGTCTACC	0.453													43	97	---	---	---	---	PASS
CLSTN2	64084	broad.mit.edu	37	3	140281051	140281051	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:140281051G>T	uc003etn.2	+	13	2303	c.2113G>T	c.(2113-2115)GAC>TAC	p.D705Y		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	705	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						GATCGGAGGGGACTTGGACCC	0.493										HNSCC(16;0.037)			25	66	---	---	---	---	PASS
SLC9A9	285195	broad.mit.edu	37	3	143412129	143412129	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:143412129A>G	uc003evn.2	-	5	736	c.554T>C	c.(553-555)GTG>GCG	p.V185A	SLC9A9_uc011bnk.1_Missense_Mutation_p.V59A	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen	185	Helical; (Potential).				regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						CATAGCCTTCACAAAACCATA	0.378													11	64	---	---	---	---	PASS
DHX36	170506	broad.mit.edu	37	3	154017707	154017707	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:154017707G>A	uc003ezy.3	-	12	1550	c.1469C>T	c.(1468-1470)GCG>GTG	p.A490V	DHX36_uc010hvq.2_Missense_Mutation_p.A490V|DHX36_uc003ezz.3_Missense_Mutation_p.A490V	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	490	Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GACCAGTATCGCACCATCCTA	0.358													7	71	---	---	---	---	PASS
IFT80	57560	broad.mit.edu	37	3	159995188	159995188	+	Missense_Mutation	SNP	T	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:159995188T>G	uc011boy.1	-	18	2438	c.2005A>C	c.(2005-2007)AGT>CGT	p.S669R	IFT80_uc003fda.2_RNA|IFT80_uc003fdb.1_Missense_Mutation_p.S532R|IFT80_uc003fdd.1_Missense_Mutation_p.S352R|IFT80_uc003fde.1_Missense_Mutation_p.S532R	NM_020800	NP_065851	Q9P2H3	IFT80_HUMAN	WD repeat domain 56	669						cilium axoneme|microtubule basal body				ovary(1)	1			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			ATGTTCCCACTAAACAGTAGT	0.328													47	81	---	---	---	---	PASS
MECOM	2122	broad.mit.edu	37	3	168810803	168810803	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:168810803C>A	uc003ffi.3	-	13	2812	c.2543G>T	c.(2542-2544)CGA>CTA	p.R848L	MECOM_uc010hwk.1_Missense_Mutation_p.R862L|MECOM_uc003ffj.3_Missense_Mutation_p.R913L|MECOM_uc011bpi.1_Missense_Mutation_p.R840L|MECOM_uc003ffn.3_Missense_Mutation_p.R848L|MECOM_uc003ffk.2_Missense_Mutation_p.R839L|MECOM_uc003ffl.2_Missense_Mutation_p.R999L|MECOM_uc011bpj.1_Missense_Mutation_p.R1036L|MECOM_uc011bpk.1_Missense_Mutation_p.R838L	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	848					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						AATGAAATTTCGAATTTCTGT	0.443													12	202	---	---	---	---	PASS
ZNF718	255403	broad.mit.edu	37	4	155336	155336	+	Missense_Mutation	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155336A>T	uc003fzt.3	+	8	994	c.861A>T	c.(859-861)GAA>GAT	p.E287D	ZNF595_uc003fzu.1_Intron|ZNF718_uc010iaz.2_RNA|ZNF718_uc003fzw.3_Missense_Mutation_p.N67I	NM_001039127	NP_001034216	Q3SXZ3	ZN718_HUMAN	zinc finger protein 718	287	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0681)|Epithelial(2;0.0838)|all cancers(2;0.135)|LUSC - Lung squamous cell carcinoma(95;0.18)		AATGTGAAGAATGTGGTAAAG	0.358													13	6	---	---	---	---	PASS
SLIT2	9353	broad.mit.edu	37	4	20598038	20598038	+	Silent	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:20598038T>C	uc003gpr.1	+	32	3525	c.3321T>C	c.(3319-3321)AGT>AGC	p.S1107S	SLIT2_uc003gps.1_Silent_p.S1099S	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1107	EGF-like 5; calcium-binding (Potential).				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TATTCTTCAGTGGCTTGTTCT	0.363													11	4	---	---	---	---	PASS
PPARGC1A	10891	broad.mit.edu	37	4	23803870	23803870	+	Silent	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:23803870G>A	uc003gqs.2	-	11	2238	c.2118C>T	c.(2116-2118)TGC>TGT	p.C706C	PPARGC1A_uc003gqt.2_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	706	RRM.				androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				GATTTACTGTGCACTCCTCAA	0.418													33	22	---	---	---	---	PASS
GABRG1	2565	broad.mit.edu	37	4	46043218	46043218	+	Silent	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:46043218A>T	uc003gxb.2	-	9	1337	c.1185T>A	c.(1183-1185)TCT>TCA	p.S395S		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	395	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		CTTGCGGCACAGAAATATTAT	0.408													11	22	---	---	---	---	PASS
NPY1R	4886	broad.mit.edu	37	4	164247222	164247222	+	Missense_Mutation	SNP	A	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164247222A>C	uc003iqm.1	-	2	751	c.485T>G	c.(484-486)ATT>AGT	p.I162S	NPY1R_uc011cjj.1_Intron	NM_000909	NP_000900	P25929	NPY1R_HUMAN	neuropeptide Y receptor Y1	162	Helical; Name=4; (Potential).				inhibition of adenylate cyclase activity by G-protein signaling pathway|outflow tract morphogenesis	integral to plasma membrane	protein binding			lung(1)|pancreas(1)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				AAGGACCCAAATCACAGCAAT	0.433													27	14	---	---	---	---	PASS
CLCN3	1182	broad.mit.edu	37	4	170610338	170610338	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:170610338C>A	uc003isi.2	+	5	1072	c.563C>A	c.(562-564)CCA>CAA	p.P188Q	CLCN3_uc003ish.2_Missense_Mutation_p.P188Q|CLCN3_uc011cjz.1_Missense_Mutation_p.P171Q|CLCN3_uc011cka.1_Missense_Mutation_p.P188Q|CLCN3_uc003isj.1_Missense_Mutation_p.P161Q	NM_001829	NP_001820	P51790	CLCN3_HUMAN	chloride channel 3 isoform b	188					endosomal lumen acidification	cell surface|early endosome membrane|Golgi membrane|integral to membrane|late endosome membrane|transport vesicle membrane	antiporter activity|ATP binding|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|voltage-gated chloride channel activity			breast(2)|ovary(1)	3		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0233)|LUSC - Lung squamous cell carcinoma(193;0.131)		GATAAATGTCCACAGTGGAAA	0.398													4	45	---	---	---	---	PASS
ODZ3	55714	broad.mit.edu	37	4	183664445	183664445	+	Missense_Mutation	SNP	G	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183664445G>C	uc003ivd.1	+	18	3539	c.3502G>C	c.(3502-3504)GAT>CAT	p.D1168H	ODZ3_uc003ive.1_Missense_Mutation_p.D574H	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1168	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TGGTCAAGCTGATGGTAACAA	0.547													24	17	---	---	---	---	PASS
FAT1	2195	broad.mit.edu	37	4	187541799	187541799	+	Nonsense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187541799G>A	uc003izf.2	-	10	6129	c.5941C>T	c.(5941-5943)CAG>TAG	p.Q1981*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1981	Extracellular (Potential).|Cadherin 18.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TAGACATCCTGGGTAAACTTT	0.433										HNSCC(5;0.00058)			77	60	---	---	---	---	PASS
C5orf38	153571	broad.mit.edu	37	5	2752747	2752747	+	Nonsense_Mutation	SNP	C	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:2752747C>G	uc003jdc.2	+	2	329	c.212C>G	c.(211-213)TCA>TGA	p.S71*	C5orf38_uc011cmg.1_Nonsense_Mutation_p.S71*|C5orf38_uc011cmh.1_Intron|C5orf38_uc011cmi.1_Intron|C5orf38_uc011cmj.1_Intron	NM_178569	NP_848664	Q86SI9	CEI_HUMAN	hypothetical protein LOC153571 precursor	71						extracellular region					0				GBM - Glioblastoma multiforme(108;0.205)		TTTGTGTTGTCAAAACACTGG	0.507													60	74	---	---	---	---	PASS
C1QTNF3	114899	broad.mit.edu	37	5	34024067	34024067	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34024067C>A	uc003jin.2	-	5	615	c.528G>T	c.(526-528)GAG>GAT	p.E176D	C1QTNF3_uc003jim.2_Missense_Mutation_p.E56D|C1QTNF3_uc003jio.2_Missense_Mutation_p.E249D	NM_030945	NP_112207	Q9BXJ4	C1QT3_HUMAN	C1q and tumor necrosis factor related protein 3	176	C1q.					collagen					0	all_lung(31;0.0207)					CATACACTTCCTCAACATCCT	0.408													5	81	---	---	---	---	PASS
HEATR7B2	133558	broad.mit.edu	37	5	40998213	40998213	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:40998213C>A	uc003jmj.3	-	42	5189	c.4699G>T	c.(4699-4701)GCT>TCT	p.A1567S	HEATR7B2_uc003jmi.3_Missense_Mutation_p.A1122S	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1567							binding			ovary(6)|central_nervous_system(2)	8						GCAGCCTCAGCTGCTCTCTGG	0.463													83	257	---	---	---	---	PASS
DIMT1L	27292	broad.mit.edu	37	5	61688006	61688006	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:61688006G>T	uc003jta.2	-	10	913	c.784C>A	c.(784-786)CAT>AAT	p.H262N		NM_014473	NP_055288	Q9UNQ2	DIMT1_HUMAN	dimethyladenosine transferase	262						nucleolus	RNA binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			central_nervous_system(1)	1		Lung NSC(810;8.94e-06)|Prostate(74;0.0235)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.122)		ACAATATTATGGACTGAACAG	0.313													4	37	---	---	---	---	PASS
UTP15	84135	broad.mit.edu	37	5	72864310	72864310	+	Silent	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72864310A>G	uc003kcw.1	+	4	472	c.249A>G	c.(247-249)GCA>GCG	p.A83A	UTP15_uc011cso.1_Silent_p.A64A|UTP15_uc011csp.1_5'UTR|UTP15_uc010ize.1_Silent_p.A83A|ANKRA2_uc003kcu.1_5'Flank|ANKRA2_uc003kcv.2_5'Flank	NM_032175	NP_115551	Q8TED0	UTP15_HUMAN	UTP15, U3 small nucleolar ribonucleoprotein,	83	WD 2.				rRNA processing	cytoplasm|nucleolus					0		Lung NSC(167;0.00405)|Ovarian(174;0.0129)		OV - Ovarian serous cystadenocarcinoma(47;7.76e-55)		AAGACACAGCATACTGTGCTA	0.423													36	16	---	---	---	---	PASS
ANKRD34B	340120	broad.mit.edu	37	5	79854626	79854626	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79854626A>G	uc010jam.2	-	4	1563	c.1213T>C	c.(1213-1215)TCA>CCA	p.S405P	ANKRD34B_uc003kgw.2_Missense_Mutation_p.S405P|ANKRD34B_uc010jan.2_Missense_Mutation_p.S405P	NM_001004441	NP_001004441	A5PLL1	AN34B_HUMAN	ankyrin repeat domain 34B	405						cytoplasm|nucleus				pancreas(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-46)|Epithelial(54;5.64e-41)|all cancers(79;3.24e-36)		TTGGACTCTGACAATTGGGAA	0.478													25	14	---	---	---	---	PASS
MSH3	4437	broad.mit.edu	37	5	79968171	79968171	+	Nonsense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79968171G>T	uc003kgz.2	+	5	1154	c.901G>T	c.(901-903)GGA>TGA	p.G301*		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	301					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		GGTGGCAAAAGGATATAAGGT	0.433								MMR					7	30	---	---	---	---	PASS
APC	324	broad.mit.edu	37	5	112174187	112174187	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112174187A>G	uc010jby.2	+	16	3276	c.2896A>G	c.(2896-2898)AGT>GGT	p.S966G	APC_uc011cvt.1_Missense_Mutation_p.S948G|APC_uc003kpz.3_Missense_Mutation_p.S966G|APC_uc003kpy.3_Missense_Mutation_p.S966G|APC_uc010jbz.2_Missense_Mutation_p.S683G|APC_uc010jca.2_Missense_Mutation_p.S266G	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	966	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)|p.S966R(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TAGTTTAAATAGTGTCAGTAG	0.328		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			16	11	---	---	---	---	PASS
KCNN2	3781	broad.mit.edu	37	5	113831666	113831666	+	Silent	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:113831666C>A	uc003kqo.2	+	8	1984	c.1527C>A	c.(1525-1527)ACC>ACA	p.T509T	KCNN2_uc003kqp.2_Silent_p.T161T|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	509						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		GGATTGTTACCCTGGAAACAA	0.448													36	35	---	---	---	---	PASS
SLC27A6	28965	broad.mit.edu	37	5	128320972	128320972	+	Missense_Mutation	SNP	C	G	G	rs142869983	byFrequency	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:128320972C>G	uc003kuy.2	+	3	1024	c.628C>G	c.(628-630)CAT>GAT	p.H210D	SLC27A6_uc003kuz.2_Missense_Mutation_p.H210D	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	210					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)		ACGCAGCCACCATGTTGTCTC	0.423													17	17	---	---	---	---	PASS
ACSL6	23305	broad.mit.edu	37	5	131296315	131296315	+	Splice_Site	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131296315C>T	uc010jdo.1	-	19	1866	c.1783_splice	c.e19-1	p.A595_splice	ACSL6_uc003kvv.1_Splice_Site|ACSL6_uc003kvx.1_Splice_Site_p.A620_splice|ACSL6_uc003kvy.1_Splice_Site_p.A620_splice|ACSL6_uc003kwb.2_Splice_Site_p.A585_splice|ACSL6_uc003kvz.1_Splice_Site_p.A520_splice|ACSL6_uc003kwa.1_Splice_Site_p.A606_splice|ACSL6_uc003kvw.1_Splice_Site_p.A241_splice|ACSL6_uc010jdn.1_Splice_Site_p.A610_splice	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6						fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CCAAAAAGGCCTGCAGTGCTC	0.433													13	13	---	---	---	---	PASS
PCDHB5	26167	broad.mit.edu	37	5	140517005	140517005	+	Silent	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140517005C>T	uc003liq.2	+	1	2206	c.1989C>T	c.(1987-1989)GAC>GAT	p.D663D		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	663	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCTGGTGGACGGCTTCTCCC	0.716													16	9	---	---	---	---	PASS
THG1L	54974	broad.mit.edu	37	5	157159978	157159978	+	Silent	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157159978G>A	uc003lxd.2	+	2	420	c.294G>A	c.(292-294)GTG>GTA	p.V98V	THG1L_uc011ddu.1_5'UTR	NM_017872	NP_060342	Q9NWX6	THG1_HUMAN	interphase cytoplasmic foci protein 45	98					protein homotetramerization|tRNA modification	mitochondrion	GTP binding|metal ion binding|tRNA guanylyltransferase activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGGATATTGTGATCGCGTATG	0.448													41	23	---	---	---	---	PASS
EBF1	1879	broad.mit.edu	37	5	158522656	158522656	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158522656A>G	uc010jip.2	-	4	685	c.383T>C	c.(382-384)GTG>GCG	p.V128A	EBF1_uc011ddw.1_5'UTR|EBF1_uc011ddx.1_Missense_Mutation_p.V128A|EBF1_uc003lxl.3_Missense_Mutation_p.V128A	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	128					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AATGAGGCGCACGTAGAAATC	0.478			T	HMGA2	lipoma								10	22	---	---	---	---	PASS
KCNIP1	30820	broad.mit.edu	37	5	170159793	170159793	+	Intron	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:170159793C>T	uc003mas.2	+						KCNIP1_uc003map.2_Intron|KCNIP1_uc003mat.2_Intron|KCNIP1_uc010jjp.2_Intron|KCNIP1_uc010jjq.2_Intron	NM_001034837	NP_001030009	Q9NZI2	KCIP1_HUMAN	Kv channel interacting protein 1 isoform 1						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)			GCTTTTATGTCCCTGCTCCAG	0.478													21	25	---	---	---	---	PASS
CDHR2	54825	broad.mit.edu	37	5	176011260	176011260	+	Nonsense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176011260G>T	uc003mem.1	+	18	2194	c.2128G>T	c.(2128-2130)GGA>TGA	p.G710*	CDHR2_uc003men.1_Nonsense_Mutation_p.G710*	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	710	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GGAGGATCCAGGTATGTGCTC	0.577													4	32	---	---	---	---	PASS
CANX	821	broad.mit.edu	37	5	179155595	179155595	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179155595G>T	uc003mkk.2	+	15	1906	c.1729G>T	c.(1729-1731)GAT>TAT	p.D577Y	CANX_uc011dgp.1_Missense_Mutation_p.D612Y|CANX_uc003mkl.2_Missense_Mutation_p.D577Y|CANX_uc011dgq.1_Missense_Mutation_p.D469Y	NM_001746	NP_001737	P27824	CALX_HUMAN	calnexin precursor	577	Cytoplasmic (Potential).				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein secretion	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane|melanosome	calcium ion binding|sugar binding|unfolded protein binding				0	all_cancers(89;0.000129)|all_epithelial(37;5.59e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0413)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCAATAGGAGGATGAAATTTT	0.343													13	6	---	---	---	---	PASS
EXOC2	55770	broad.mit.edu	37	6	572516	572516	+	Intron	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:572516A>G	uc003mtd.2	-						EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein						exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		GTCCGTATACACACCTCACTG	0.433													16	25	---	---	---	---	PASS
TRIM15	89870	broad.mit.edu	37	6	30131465	30131465	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30131465C>T	uc010jrx.2	+	1	483	c.4C>T	c.(4-6)CCC>TCC	p.P2S	TRIM10_uc003npn.2_5'Flank|TRIM10_uc003npo.3_5'Flank	NM_033229	NP_150232	Q9C019	TRI15_HUMAN	tripartite motif protein 15	2					mesodermal cell fate determination	intracellular	zinc ion binding				0						CACCGTGATGCCCGCAACCCC	0.622													5	11	---	---	---	---	PASS
TNXB	7148	broad.mit.edu	37	6	32046816	32046816	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32046816C>T	uc003nzl.2	-	11	4571	c.4369G>A	c.(4369-4371)GTG>ATG	p.V1457M		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1544					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TCACCTGTCACGCCCACGGCG	0.657													5	22	---	---	---	---	PASS
IMPG1	3617	broad.mit.edu	37	6	76744468	76744468	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76744468A>G	uc003pik.1	-	3	468	c.338T>C	c.(337-339)TTT>TCT	p.F113S		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	113					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				GCGATCCAGAAAGATCCGATA	0.493													9	43	---	---	---	---	PASS
TTK	7272	broad.mit.edu	37	6	80736243	80736243	+	Intron	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80736243G>T	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)		TAATTACTTTGGCCCCTTGCT	0.224													15	45	---	---	---	---	PASS
MDN1	23195	broad.mit.edu	37	6	90428865	90428865	+	Missense_Mutation	SNP	T	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90428865T>A	uc003pnn.1	-	41	6163	c.6047A>T	c.(6046-6048)TAT>TTT	p.Y2016F		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2016					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CTGAACATCATAGGGAGTGAT	0.403													11	33	---	---	---	---	PASS
AIM1	202	broad.mit.edu	37	6	106967119	106967119	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:106967119C>A	uc003prh.2	+	2	1299	c.812C>A	c.(811-813)ACC>AAC	p.T271N		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	271							sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		AACACTGCCACCAAAATCTCC	0.413													5	46	---	---	---	---	PASS
PDE10A	10846	broad.mit.edu	37	6	165958681	165958681	+	Intron	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:165958681T>C	uc003qun.2	-						PDE10A_uc011egj.1_Intron|PDE10A_uc011egk.1_Intron|PDE10A_uc003quo.2_Intron	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2						platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	TTATCCTAACTTTCTAACTGC	0.338													16	52	---	---	---	---	PASS
ICA1	3382	broad.mit.edu	37	7	8198264	8198264	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:8198264G>T	uc003srm.2	-	7	665	c.598C>A	c.(598-600)CTT>ATT	p.L200I	ICA1_uc010ktr.2_Missense_Mutation_p.L200I|ICA1_uc003srl.2_Missense_Mutation_p.L188I|ICA1_uc003srn.3_Missense_Mutation_p.L126I|ICA1_uc003srp.3_Missense_Mutation_p.L199I|ICA1_uc010kts.2_RNA|ICA1_uc003srq.2_Missense_Mutation_p.L200I|ICA1_uc003srr.2_Missense_Mutation_p.L199I|ICA1_uc003sro.3_Missense_Mutation_p.L200I|ICA1_uc011jxg.1_Missense_Mutation_p.L200I|ICA1_uc003srs.1_Missense_Mutation_p.L200I	NM_022307	NP_071682	Q05084	ICA69_HUMAN	islet cell autoantigen 1	200	AH.				neurotransmitter transport	cell junction|cytosol|Golgi membrane|nucleus|secretory granule membrane|synaptic vesicle membrane|transport vesicle membrane				central_nervous_system(1)	1		Ovarian(82;0.0612)		UCEC - Uterine corpus endometrioid carcinoma (126;0.246)		TTTTTTGCAAGGCGCACTTGT	0.393													28	33	---	---	---	---	PASS
HDAC9	9734	broad.mit.edu	37	7	18767237	18767237	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:18767237C>T	uc003suh.2	+	12	1798	c.1757C>T	c.(1756-1758)TCT>TTT	p.S586F	HDAC9_uc003sue.2_Missense_Mutation_p.S586F|HDAC9_uc011jyd.1_Missense_Mutation_p.S586F|HDAC9_uc003sui.2_Missense_Mutation_p.S589F|HDAC9_uc003suj.2_Missense_Mutation_p.S545F|HDAC9_uc003sua.1_Missense_Mutation_p.S564F|HDAC9_uc010kue.1_Missense_Mutation_p.S241F	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	586					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CGTGCGCTCTCTGTGCGCCAA	0.542													6	26	---	---	---	---	PASS
DNAH11	8701	broad.mit.edu	37	7	21912964	21912964	+	Silent	SNP	A	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21912964A>C	uc003svc.2	+	75	12092	c.12061A>C	c.(12061-12063)AGA>CGA	p.R4021R		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4021	AAA 6 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AGGAAGCCACAGAGATTACAG	0.438									Kartagener_syndrome				16	24	---	---	---	---	PASS
FAM183B	340286	broad.mit.edu	37	7	38725419	38725419	+	3'UTR	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38725419C>A	uc011kbd.1	-	2						NR_028347				Homo sapiens cDNA FLJ42138 fis, clone TESTI2036684.												0						CTGGCGTCTGCGGGTTCCTCC	0.537													53	48	---	---	---	---	PASS
INHBA	3624	broad.mit.edu	37	7	41739630	41739630	+	Missense_Mutation	SNP	C	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41739630C>G	uc003thq.2	-	1	578	c.343G>C	c.(343-345)GAA>CAA	p.E115Q	LOC285954_uc003tht.3_Intron|INHBA_uc003thr.2_Missense_Mutation_p.E115Q|LOC285954_uc003ths.2_Intron	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	115					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						TCCATAAGTTCATTCATTTCT	0.552										TSP Lung(11;0.080)			21	293	---	---	---	---	PASS
ABCA13	154664	broad.mit.edu	37	7	48312439	48312439	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48312439A>G	uc003toq.2	+	17	3201	c.3176A>G	c.(3175-3177)CAC>CGC	p.H1059R	ABCA13_uc010kyr.2_Missense_Mutation_p.H562R	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1059					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GAAGTGATCCACACTACTTTG	0.373													13	14	---	---	---	---	PASS
SEMA3D	223117	broad.mit.edu	37	7	84702397	84702397	+	Missense_Mutation	SNP	T	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:84702397T>A	uc003uic.2	-	4	416	c.376A>T	c.(376-378)ACA>TCA	p.T126S	SEMA3D_uc010led.2_Missense_Mutation_p.T126S|SEMA3D_uc010lee.1_Missense_Mutation_p.T126S	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	126	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						GCACATTCTGTCTGTTGGGCA	0.333													9	29	---	---	---	---	PASS
HBP1	26959	broad.mit.edu	37	7	106830702	106830702	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106830702C>T	uc003vdy.2	+	8	1193	c.1007C>T	c.(1006-1008)CCT>CTT	p.P336L	HBP1_uc011klv.1_Missense_Mutation_p.P346L|HBP1_uc003vdz.2_Missense_Mutation_p.P336L|HBP1_uc003vea.2_Missense_Mutation_p.P336L|HBP1_uc003veb.1_Missense_Mutation_p.P336L	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	336	AXH.				cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding			skin(1)	1						GTATGTCTACCTCCTGGACAC	0.348													70	98	---	---	---	---	PASS
CBLL1	79872	broad.mit.edu	37	7	107399420	107399420	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107399420A>G	uc003veq.2	+	6	1603	c.1273A>G	c.(1273-1275)AAT>GAT	p.N425D	CBLL1_uc011kme.1_Missense_Mutation_p.N304D|CBLL1_uc011kmf.1_Missense_Mutation_p.N424D	NM_024814	NP_079090	Q75N03	HAKAI_HUMAN	Cas-Br-M (murine) ecotropic retroviral	425	Pro-rich.				cell-cell adhesion|negative regulation of cell adhesion|positive regulation of cell migration|positive regulation of endocytosis		protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|skin(2)|lung(1)	5						TCACCATTATAATCCTAACTC	0.507													49	111	---	---	---	---	PASS
LAMB4	22798	broad.mit.edu	37	7	107756483	107756483	+	Missense_Mutation	SNP	C	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107756483C>G	uc010ljo.1	-	3	242	c.158G>C	c.(157-159)AGA>ACA	p.R53T	LAMB4_uc003vey.2_Missense_Mutation_p.R53T	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	53	Laminin N-terminal.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						TTTCTGGGCTCTGCTCAGCCC	0.493													34	63	---	---	---	---	PASS
PRSS37	136242	broad.mit.edu	37	7	141536910	141536910	+	Splice_Site	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141536910A>T	uc003vws.1	-	4	939	c.567_splice	c.e4+1	p.G189_splice	PRSS37_uc011krk.1_Splice_Site_p.G176_splice|PRSS37_uc011krl.1_Splice_Site_p.G188_splice|PRSS37_uc003vwt.1_Splice_Site_p.G176_splice	NM_001008270	NP_001008271	A4D1T9	PRS37_HUMAN	protease, serine, 37 precursor						proteolysis	extracellular region	serine-type endopeptidase activity			skin(1)	1						AGATAAGATTACCCCAAAAAT	0.328													28	36	---	---	---	---	PASS
OR2A14	135941	broad.mit.edu	37	7	143826669	143826669	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143826669C>A	uc011kua.1	+	1	464	c.464C>A	c.(463-465)GCT>GAT	p.A155D		NM_001001659	NP_001001659	Q96R47	O2A14_HUMAN	olfactory receptor, family 2, subfamily A,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					TTCCTCCTGGCTCTGGTCCCT	0.537													10	229	---	---	---	---	PASS
PTK2B	2185	broad.mit.edu	37	8	27315846	27315846	+	Silent	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27315846G>T	uc003xfn.1	+	36	3658	c.2850G>T	c.(2848-2850)CTG>CTT	p.L950L	PTK2B_uc003xfo.1_Silent_p.L950L|PTK2B_uc003xfp.1_Silent_p.L950L|PTK2B_uc003xfq.1_Silent_p.L908L	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	950	Focal adhesion targeting (FAT).|Interaction with TGFB1I1 (By similarity).				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		ACAAAGACCTGGCAGAGCTCA	0.557													9	7	---	---	---	---	PASS
PREX2	80243	broad.mit.edu	37	8	69012256	69012256	+	Intron	SNP	A	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69012256A>C	uc003xxv.1	+						PREX2_uc003xxu.1_Intron|PREX2_uc011lez.1_Intron	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a						G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						acctcatttgatctttgcaaa	0.060													10	7	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113418786	113418786	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113418786C>A	uc003ynu.2	-	35	5935	c.5776G>T	c.(5776-5778)GCC>TCC	p.A1926S	CSMD3_uc003yns.2_Missense_Mutation_p.A1128S|CSMD3_uc003ynt.2_Missense_Mutation_p.A1886S|CSMD3_uc011lhx.1_Missense_Mutation_p.A1822S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1926	Sushi 10.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TTCCACTGGGCCAAAGAATTG	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			4	40	---	---	---	---	PASS
ATAD2	29028	broad.mit.edu	37	8	124340506	124340506	+	Missense_Mutation	SNP	C	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124340506C>G	uc003yqh.3	-	25	3900	c.3792G>C	c.(3790-3792)TTG>TTC	p.L1264F	ATAD2_uc011lii.1_Missense_Mutation_p.L1055F|ATAD2_uc003yqi.3_RNA	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	1264					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TCTTGTCTCTCAATTCTGTAC	0.328													6	31	---	---	---	---	PASS
FREM1	158326	broad.mit.edu	37	9	14823222	14823222	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14823222C>T	uc003zlm.2	-	13	2863	c.2273G>A	c.(2272-2274)GGC>GAC	p.G758D	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	758	CSPG 4.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CAAAGTACCGCCATGTTGGTT	0.443													55	33	---	---	---	---	PASS
C9orf79	286234	broad.mit.edu	37	9	90500689	90500689	+	Silent	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90500689G>A	uc004app.3	+	4	1322	c.1287G>A	c.(1285-1287)GGG>GGA	p.G429G	C9orf79_uc004apo.1_Silent_p.G241G	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	429						integral to membrane				ovary(3)	3						CAACCGTGGGGAACCACTTAC	0.572													31	75	---	---	---	---	PASS
FAM125B	89853	broad.mit.edu	37	9	129184187	129184187	+	Silent	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129184187G>A	uc004bqh.1	+	7	798	c.717G>A	c.(715-717)ACG>ACA	p.T239T	FAM125B_uc011lzy.1_Silent_p.T224T|FAM125B_uc010mxd.2_Silent_p.T232T	NM_033446	NP_258257	Q9H7P6	F125B_HUMAN	hypothetical protein LOC89853 isoform 1	239					protein transport	late endosome membrane					0						GCACCCGGACGGACTACGAGT	0.562													33	64	---	---	---	---	PASS
GARNL3	84253	broad.mit.edu	37	9	130145740	130145740	+	Missense_Mutation	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130145740T>C	uc011mae.1	+	23	2586	c.2185T>C	c.(2185-2187)TGC>CGC	p.C729R	GARNL3_uc011mad.1_Missense_Mutation_p.C707R|GARNL3_uc010mxi.2_5'UTR	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	729	CNH.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						TAAAAAGGTTTGCCCCTTTAA	0.373													11	10	---	---	---	---	PASS
ADAMTS13	11093	broad.mit.edu	37	9	136282737	136282737	+	Intron	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136282737C>A	uc004cdp.3	+						REXO4_uc011mde.1_Intron|REXO4_uc004cdm.2_Intron|REXO4_uc011mdf.1_Intron|REXO4_uc004cdn.2_Intron|REXO4_uc004cdo.2_Intron	NR_024514		Q76LX8	ATS13_HUMAN	Homo sapiens vWF-CP(ADAMTS13) mRNA for von Willebrand factor-cleaving protease, complete cds.						cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		CCTCAAGCCTCACCTCTTGCA	0.602													5	71	---	---	---	---	PASS
RXRA	6256	broad.mit.edu	37	9	137300876	137300876	+	Missense_Mutation	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137300876A>T	uc004cfb.2	+	4	683	c.521A>T	c.(520-522)AAC>ATC	p.N174I	RXRA_uc004cfc.1_Missense_Mutation_p.N77I	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	174	NR C4-type.|Nuclear receptor.				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	TGCCGCGACAACAAGGACTGC	0.622													17	43	---	---	---	---	PASS
LCN6	158062	broad.mit.edu	37	9	139641878	139641878	+	Missense_Mutation	SNP	G	T	T	rs150825099	byFrequency	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139641878G>T	uc004ciy.2	-	2	273	c.228C>A	c.(226-228)CAC>CAA	p.H76Q	LCN10_uc004ciw.2_RNA|uc004ciz.1_RNA	NM_198946	NP_945184	P62502	LCN6_HUMAN	lipocalin 6 precursor	76					single fertilization	extracellular region	binding				0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.32e-06)|Epithelial(140;7.83e-05)		CCACTCACCCGTGCTGAGAGG	0.627													13	12	---	---	---	---	PASS
FAM188A	80013	broad.mit.edu	37	10	15875624	15875624	+	Intron	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15875624C>A	uc001iod.1	-						FAM188A_uc001ioe.1_Intron|FAM188A_uc001iof.1_Intron	NM_024948	NP_079224	Q9H8M7	F188A_HUMAN	chromosome 10 open reading frame 97						apoptosis	nucleus	calcium ion binding			ovary(1)	1						AAGGAATATACTTACTCATTC	0.244													3	34	---	---	---	---	PASS
NRG3	10718	broad.mit.edu	37	10	84745280	84745280	+	Silent	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:84745280G>T	uc001kco.2	+	9	2037	c.2010G>T	c.(2008-2010)CTG>CTT	p.L670L	NRG3_uc010qlz.1_Silent_p.L669L|NRG3_uc001kcp.2_Silent_p.L473L|NRG3_uc001kcq.2_Silent_p.L320L|NRG3_uc001kcr.2_Silent_p.L344L	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	694	Cytoplasmic (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		TTCTCCCCCTGAGTCCCACAG	0.478													15	37	---	---	---	---	PASS
TBC1D12	23232	broad.mit.edu	37	10	96281850	96281850	+	Intron	SNP	G	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96281850G>C	uc001kjr.2	+							NM_015188	NP_056003	O60347	TBC12_HUMAN	TBC1 domain family, member 12							intracellular	Rab GTPase activator activity				0		Colorectal(252;0.0429)				GGTATGAATGGATCATGTTTT	0.368													10	40	---	---	---	---	PASS
PIK3AP1	118788	broad.mit.edu	37	10	98386609	98386609	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98386609C>T	uc001kmq.2	-	10	1653	c.1525G>A	c.(1525-1527)GAA>AAA	p.E509K	PIK3AP1_uc001kmo.2_Missense_Mutation_p.E108K|PIK3AP1_uc001kmp.2_Missense_Mutation_p.E331K	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	509						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		ACATCTTCTTCCTGACCAAGA	0.537													13	33	---	---	---	---	PASS
PDZD7	79955	broad.mit.edu	37	10	102781698	102781698	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102781698C>A	uc001kso.1	-	6	939	c.724G>T	c.(724-726)GAC>TAC	p.D242Y	PDZD7_uc001ksn.2_Missense_Mutation_p.D242Y	NM_024895	NP_079171	Q9H5P4	PDZD7_HUMAN	PDZ domain containing 7	242	PDZ 2.					cilium|nucleus	protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3				Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		CCACCATGGTCCACTCTGAGG	0.627													6	19	---	---	---	---	PASS
OR56B1	387748	broad.mit.edu	37	11	5758307	5758307	+	Silent	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5758307G>T	uc001mbt.1	+	1	561	c.561G>T	c.(559-561)CTG>CTT	p.L187L	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|OR56B1_uc001mbs.1_Silent_p.L187L|OR56B1_uc009yev.1_Silent_p.L187L	NM_001005180	NP_001005180	Q8NGI3	O56B1_HUMAN	olfactory receptor, family 56, subfamily B,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.086)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.184)		AACACTGCCTGTGCTCTAACC	0.498													6	38	---	---	---	---	PASS
OR52E6	390078	broad.mit.edu	37	11	5862830	5862830	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5862830G>T	uc010qzq.1	-	1	298	c.298C>A	c.(298-300)CTT>ATT	p.L100I	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	100	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATCTGAGAAAGGTAGCCTCCA	0.453													27	116	---	---	---	---	PASS
NLRP10	338322	broad.mit.edu	37	11	7982580	7982580	+	Silent	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7982580A>G	uc001mfv.1	-	2	596	c.579T>C	c.(577-579)GGT>GGC	p.G193G		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	193	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGTACAGAGTACCGGTGGCCC	0.527													8	13	---	---	---	---	PASS
ALKBH3	221120	broad.mit.edu	37	11	43923170	43923170	+	Silent	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:43923170G>A	uc001mxs.2	+	8	1007	c.564G>A	c.(562-564)GTG>GTA	p.V188V	ALKBH3_uc009ykp.2_RNA|ALKBH3_uc001mxt.2_RNA|ALKBH3_uc009ykq.2_Silent_p.V41V	NM_139178	NP_631917	Q96Q83	ALKB3_HUMAN	AlkB homolog 3	188	Fe2OG dioxygenase.				DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation	mitochondrion|nucleoplasm	damaged DNA binding|DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0					Vitamin C(DB00126)	AGGACAGCGTGGACTGGCACA	0.493								Direct_reversal_of_damage					28	47	---	---	---	---	PASS
DGKZ	8525	broad.mit.edu	37	11	46397511	46397511	+	Intron	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46397511G>T	uc001ncn.1	+						DGKZ_uc001nch.1_Intron|DGKZ_uc010rgq.1_Intron|DGKZ_uc001ncj.1_Intron|DGKZ_uc010rgr.1_Intron|DGKZ_uc001nck.1_Intron|DGKZ_uc001ncl.2_Intron|DGKZ_uc001ncm.2_Intron|DGKZ_uc009yky.1_Intron|DGKZ_uc010rgs.1_Intron	NM_001105540	NP_001099010	Q13574	DGKZ_HUMAN	diacylglycerol kinase zeta isoform 4						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell migration|intracellular signal transduction|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of mitotic cell cycle|platelet activation	cytoplasm|lamellipodium|nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|diacylglycerol kinase activity|lipid kinase activity|metal ion binding|protein binding|protein C-terminus binding			pancreas(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		TGTGAGTGCGGTGGGGCGGCC	0.667													7	8	---	---	---	---	PASS
OR4S2	219431	broad.mit.edu	37	11	55418886	55418886	+	Silent	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55418886C>T	uc001nhs.1	+	1	507	c.507C>T	c.(505-507)CCC>CCT	p.P169P		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.0748)				TTTGTGGACCCAATGAGATAG	0.443													51	72	---	---	---	---	PASS
AHNAK	79026	broad.mit.edu	37	11	62301162	62301162	+	Nonsense_Mutation	SNP	T	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62301162T>A	uc001ntl.2	-	5	1027	c.727A>T	c.(727-729)AAG>TAG	p.K243*	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	243					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				ACCTGGAGCTTCGAGTGGCCA	0.607													14	49	---	---	---	---	PASS
PCNXL3	399909	broad.mit.edu	37	11	65402891	65402891	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65402891G>A	uc001oey.2	+	31	5156	c.5156G>A	c.(5155-5157)CGG>CAG	p.R1719Q	PCNXL3_uc001oez.2_Missense_Mutation_p.R606Q	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1719						integral to membrane					0						ATGCTCAACCGGCGCCACCTC	0.667													6	13	---	---	---	---	PASS
GDPD5	81544	broad.mit.edu	37	11	75160079	75160079	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:75160079C>A	uc001owo.3	-	10	1194	c.657G>T	c.(655-657)ATG>ATT	p.M219I	GDPD5_uc001owp.3_Missense_Mutation_p.M219I|GDPD5_uc001own.3_5'UTR|GDPD5_uc009yuc.2_Missense_Mutation_p.M81I|GDPD5_uc009yud.2_Missense_Mutation_p.M100I|GDPD5_uc009yue.1_Missense_Mutation_p.M107I	NM_030792	NP_110419	Q8WTR4	GDPD5_HUMAN	glycerophosphodiester phosphodiesterase domain	219	Extracellular (Potential).				glycerol metabolic process|lipid metabolic process|nervous system development	endomembrane system|growth cone|integral to membrane|perinuclear region of cytoplasm	glycerophosphodiester phosphodiesterase activity			ovary(1)	1						CTTTCTTCTCCATGATGCAGG	0.617													5	8	---	---	---	---	PASS
MED17	9440	broad.mit.edu	37	11	93528152	93528152	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93528152G>A	uc001pem.3	+	6	1213	c.938G>A	c.(937-939)CGG>CAG	p.R313Q		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	313					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CAGCTCTCTCGGGAAGCTGTT	0.403													8	57	---	---	---	---	PASS
FAM55D	54827	broad.mit.edu	37	11	114465423	114465423	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:114465423G>T	uc001ppc.2	-	2	240	c.59C>A	c.(58-60)TCC>TAC	p.S20Y	FAM55D_uc001ppd.2_5'UTR	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	20						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		AATGATCCAGGAGGCTAATAT	0.299													20	46	---	---	---	---	PASS
DSCAML1	57453	broad.mit.edu	37	11	117335863	117335863	+	Silent	SNP	C	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117335863C>G	uc001prh.1	-	17	3242	c.3240G>C	c.(3238-3240)CGG>CGC	p.R1080R		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1020	Extracellular (Potential).|Fibronectin type-III 2.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TCTGGTAGCCCCGGATGACAC	0.527													7	38	---	---	---	---	PASS
OR4D5	219875	broad.mit.edu	37	11	123810699	123810699	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123810699A>G	uc001pzk.1	+	1	376	c.376A>G	c.(376-378)ATT>GTT	p.I126V		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CTACATTGCCATTTCCCAGCC	0.512													29	38	---	---	---	---	PASS
DCP1B	196513	broad.mit.edu	37	12	2055431	2055431	+	Missense_Mutation	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2055431T>C	uc001qjx.1	-	9	1875	c.1795A>G	c.(1795-1797)ATA>GTA	p.I599V	DCP1B_uc010sdy.1_Missense_Mutation_p.I497V	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	599					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			TCATAGATTATATTTAAGAAG	0.388													32	7	---	---	---	---	PASS
C12orf59	120939	broad.mit.edu	37	12	10337966	10337966	+	Missense_Mutation	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10337966T>C	uc001qxr.2	+	3	753	c.136T>C	c.(136-138)TGG>CGG	p.W46R	C12orf59_uc001qxq.2_Missense_Mutation_p.W26R			Q4KMG9	CL059_HUMAN	RecName: Full=Uncharacterized protein C12orf59; Flags: Precursor;	46	Helical; (Potential).					integral to membrane				ovary(1)	1						CTGGTATATATGGTAAGTTTC	0.348													16	78	---	---	---	---	PASS
ETV6	2120	broad.mit.edu	37	12	12022436	12022436	+	Missense_Mutation	SNP	G	T	T	rs150089916		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12022436G>T	uc001qzz.2	+	5	816	c.542G>T	c.(541-543)CGC>CTC	p.R181L	ETV6_uc001raa.1_5'UTR	NM_001987	NP_001978	P41212	ETV6_HUMAN	ets variant 6	181						cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/NTRK3(234)|ETV6/JAK2(11)	soft_tissue(85)|kidney(66)|breast(55)|salivary_gland(26)|haematopoietic_and_lymphoid_tissue(13)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)|pancreas(1)	250		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)				CTGTTGCACCGCTCCAGGTCA	0.607			T	NTRK3|RUNX1|PDGFRB|ABL1|MN1|ABL2|FACL6|CHIC2|ARNT|JAK2|EVI1|CDX2|STL|HLXB9|MDS2|PER1|SYK|TTL|FGFR3|PAX5	congenital fibrosarcoma|multiple leukemia and lymphoma| secretory breast|MDS|ALL								52	284	---	---	---	---	PASS
SLCO1B1	10599	broad.mit.edu	37	12	21331930	21331930	+	Missense_Mutation	SNP	G	T	T	rs147421160		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21331930G>T	uc001req.3	+	7	807	c.703G>T	c.(703-705)GTG>TTG	p.V235L		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	235	Helical; Name=5; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	TAAAATGTACGTGGATATTGG	0.328													76	58	---	---	---	---	PASS
KIF21A	55605	broad.mit.edu	37	12	39751147	39751147	+	Silent	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39751147A>T	uc001rly.2	-	9	1454	c.1308T>A	c.(1306-1308)CGT>CGA	p.R436R	KIF21A_uc001rlx.2_Silent_p.R436R|KIF21A_uc001rlz.2_Silent_p.R436R|KIF21A_uc010skl.1_Silent_p.R436R|KIF21A_uc001rma.1_Silent_p.R444R	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	436	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TAATTCTTACACGCAGGTTAT	0.408													14	147	---	---	---	---	PASS
ADAMTS20	80070	broad.mit.edu	37	12	43824220	43824220	+	Nonsense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43824220C>A	uc010skx.1	-	23	3316	c.3316G>T	c.(3316-3318)GAG>TAG	p.E1106*	ADAMTS20_uc001rno.1_Nonsense_Mutation_p.E260*|ADAMTS20_uc001rnp.1_Nonsense_Mutation_p.E260*	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1106	TSP type-1 6.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CTAGCTAGCTCATTGACACAT	0.383													63	36	---	---	---	---	PASS
KRT81	3887	broad.mit.edu	37	12	52681085	52681085	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52681085C>A	uc001sab.2	-	7	1098	c.1048G>T	c.(1048-1050)GTG>TTG	p.V350L	KRT86_uc010snq.1_Intron|KRT86_uc009zmg.2_Intron|KRT81_uc001sac.2_5'UTR	NM_002281	NP_002272	Q14533	KRT81_HUMAN	keratin, hair, basic, 1	350	Rod.|Coil 2.					keratin filament	protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		GACTGGGCCACCGCGGCCTCC	0.607													5	17	---	---	---	---	PASS
CSAD	51380	broad.mit.edu	37	12	53565181	53565181	+	Nonsense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53565181G>A	uc001sby.2	-	7	622	c.496C>T	c.(496-498)CAG>TAG	p.Q166*	CSAD_uc001sbw.2_Intron|CSAD_uc009zmt.2_Intron|CSAD_uc010snx.1_Nonsense_Mutation_p.Q193*|CSAD_uc001sbz.2_Nonsense_Mutation_p.Q166*|CSAD_uc009zmu.2_Intron|CSAD_uc001sca.3_RNA|CSAD_uc010sny.1_3'UTR	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	166					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	GGGTAGCGCTGATAGCGGGCC	0.622									Hereditary_Prostate_Cancer				20	17	---	---	---	---	PASS
OR6C6	283365	broad.mit.edu	37	12	55688725	55688725	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55688725G>T	uc010sph.1	-	1	292	c.292C>A	c.(292-294)CAA>AAA	p.Q98K		NM_001005493	NP_001005493	A6NF89	OR6C6_HUMAN	olfactory receptor, family 6, subfamily C,	98	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|skin(1)	2						AAAAATAATTGAGTTGCACAA	0.383													14	27	---	---	---	---	PASS
PIP4K2C	79837	broad.mit.edu	37	12	57994176	57994176	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57994176G>A	uc001sou.2	+	7	900	c.769G>A	c.(769-771)GAG>AAG	p.E257K	PIP4K2C_uc001sot.2_Missense_Mutation_p.E257K|PIP4K2C_uc010srs.1_Missense_Mutation_p.E239K|PIP4K2C_uc010srt.1_Missense_Mutation_p.E209K	NM_001146258	NP_001139730	Q8TBX8	PI42C_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	257	PIPK.					cytoplasm|membrane	1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|identical protein binding			central_nervous_system(2)|lung(1)	3	Melanoma(17;0.122)					TATTGGTGAAGAGGAGAAGAA	0.413													20	26	---	---	---	---	PASS
NUP107	57122	broad.mit.edu	37	12	69121180	69121180	+	Intron	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69121180A>G	uc001suf.2	+						NUP107_uc001sug.2_Intron|NUP107_uc010stj.1_Intron	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa						carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			GTAAACTTTGAGAACCTACAA	0.284													23	51	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	12	80615994	80615994	+	IGR	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:80615994G>T								PPP1R12A (286759 upstream) : PTPRQ (222132 downstream)																							GCAAAGGACTGTGGTGATTTG	0.363													15	27	---	---	---	---	PASS
RFX4	5992	broad.mit.edu	37	12	107155033	107155033	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107155033G>T	uc001tlr.2	+	18	2060	c.1994G>T	c.(1993-1995)AGA>ATA	p.R665I	RFX4_uc001tlt.2_Missense_Mutation_p.R674I|RFX4_uc001tlv.2_Missense_Mutation_p.R571I	NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c	665					transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						AGTACTCCCAGACTGCATCCT	0.512													43	100	---	---	---	---	PASS
MSI1	4440	broad.mit.edu	37	12	120802555	120802555	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120802555C>T	uc001tye.1	-	5	335	c.271G>A	c.(271-273)GAC>AAC	p.D91N		NM_002442	NP_002433	O43347	MSI1H_HUMAN	musashi 1	91	RRM 1.				nervous system development	cytoplasm|nucleus	nucleotide binding			central_nervous_system(2)|breast(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACCTTAGGGTCAATCTACAAG	0.537													31	84	---	---	---	---	PASS
WDR66	144406	broad.mit.edu	37	12	122413496	122413496	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122413496G>A	uc009zxk.2	+	19	3053	c.2911G>A	c.(2911-2913)GAC>AAC	p.D971N		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	971							calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		TCAAGGCATCGACACAATGGA	0.443													5	38	---	---	---	---	PASS
GOLGA3	2802	broad.mit.edu	37	12	133398645	133398645	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133398645G>T	uc001ukz.1	-	2	629	c.70C>A	c.(70-72)CCC>ACC	p.P24T	GOLGA3_uc001ula.1_Missense_Mutation_p.P24T|GOLGA3_uc001ulb.2_Missense_Mutation_p.P24T	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	24	Pro-rich.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GGGGCCTCGGGGAGAGACGAG	0.647													18	34	---	---	---	---	PASS
GPC6	10082	broad.mit.edu	37	13	95055262	95055262	+	Intron	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:95055262A>G	uc001vlt.2	+							NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor							anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				CAATCTTTCCACACTAGGTGA	0.338													33	26	---	---	---	---	PASS
COL4A1	1282	broad.mit.edu	37	13	110861758	110861758	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:110861758G>T	uc001vqw.3	-	11	754	c.632C>A	c.(631-633)CCC>CAC	p.P211H	COL4A1_uc010agl.2_Missense_Mutation_p.P211H	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	211	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			TGGAGGGCCGGGAGGGCCTGG	0.418													4	36	---	---	---	---	PASS
RNASE1	6035	broad.mit.edu	37	14	21269781	21269781	+	Silent	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21269781A>G	uc001vyf.2	-	2	623	c.447T>C	c.(445-447)GAT>GAC	p.D149D	RNASE1_uc001vyg.2_Silent_p.D149D|RNASE1_uc001vyh.2_Silent_p.D149D|RNASE1_uc001vyi.2_Silent_p.D149D	NM_198232	NP_937875	P07998	RNAS1_HUMAN	pancreatic ribonuclease precursor	149						extracellular region	nucleic acid binding|pancreatic ribonuclease activity|protein binding				0	all_cancers(95;0.00671)	all_lung(585;0.235)	Epithelial(56;9.21e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0126)		CCACAGAAGCATCAAAGTGGA	0.572													36	23	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	14	22180585	22180585	+	Intron	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22180585G>A	uc010tme.1	+						uc001wbm.2_Nonsense_Mutation_p.W11*					Homo sapiens mRNA for T cell receptor alpha variable 2, partial cds, clone: SEB 280.																		GGGGCGGTGTGGCTAGGGCTT	0.428													34	28	---	---	---	---	PASS
NID2	22795	broad.mit.edu	37	14	52472511	52472511	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52472511G>A	uc001wzo.2	-	21	4295	c.4061C>T	c.(4060-4062)CCA>CTA	p.P1354L	NID2_uc010tqs.1_Missense_Mutation_p.P1306L|NID2_uc010tqt.1_Missense_Mutation_p.P1354L	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	1354	LDL-receptor class B 5.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					TCGTTGTTCTGGGAGATACTC	0.428													22	17	---	---	---	---	PASS
NRXN3	9369	broad.mit.edu	37	14	79423668	79423668	+	Missense_Mutation	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:79423668A>T	uc001xun.2	+	8	1731	c.1240A>T	c.(1240-1242)AGC>TGC	p.S414C	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.S539C	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	787	Laminin G-like 4.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GAGAGGAAAAAGCCTTAAGTT	0.498													13	41	---	---	---	---	PASS
LPCAT4	254531	broad.mit.edu	37	15	34656452	34656452	+	Silent	SNP	T	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34656452T>A	uc001zig.2	-	4	628	c.534A>T	c.(532-534)CGA>CGT	p.R178R	LPCAT4_uc010bav.1_Silent_p.R178R	NM_153613	NP_705841	Q643R3	LPCT4_HUMAN	lysophosphatidylcholine acyltransferase 4	178					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|calcium ion binding				0						CCACTCTGCGTCGAGAAGCCG	0.572													37	77	---	---	---	---	PASS
MYO5C	55930	broad.mit.edu	37	15	52564918	52564918	+	Silent	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52564918G>A	uc010bff.2	-	6	746	c.609C>T	c.(607-609)GCC>GCT	p.A203A	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA|MYO5C_uc010ugc.1_Silent_p.A166A	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	203	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		CATTTCCAACGGCCTAAAAAA	0.353													5	50	---	---	---	---	PASS
ADAM10	102	broad.mit.edu	37	15	58902590	58902590	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:58902590C>T	uc002afd.1	-	14	2375	c.1931G>A	c.(1930-1932)CGG>CAG	p.R644Q	ADAM10_uc010bgc.1_RNA|ADAM10_uc010ugz.1_Missense_Mutation_p.R343Q|ADAM10_uc002afe.1_Intron|ADAM10_uc002aff.1_Missense_Mutation_p.R181Q	NM_001110	NP_001101	O14672	ADA10_HUMAN	ADAM metallopeptidase domain 10 precursor	644	Extracellular (Potential).|Cys-rich.				cell-cell signaling|constitutive protein ectodomain proteolysis|epidermal growth factor receptor signaling pathway|in utero embryonic development|integrin-mediated signaling pathway|monocyte activation|negative regulation of cell adhesion|Notch receptor processing|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of T cell chemotaxis|protein phosphorylation|response to tumor necrosis factor	cell surface|endomembrane system|Golgi-associated vesicle|integral to membrane|nucleus|plasma membrane	integrin binding|metalloendopeptidase activity|protein homodimerization activity|protein kinase binding|SH3 domain binding|zinc ion binding			skin(2)	2				GBM - Glioblastoma multiforme(80;0.202)		TAATCTGCACCGCATGAAAAC	0.453													26	42	---	---	---	---	PASS
IL16	3603	broad.mit.edu	37	15	81585143	81585143	+	Missense_Mutation	SNP	C	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:81585143C>G	uc002bgh.3	+	12	2043	c.1667C>G	c.(1666-1668)TCT>TGT	p.S556C	IL16_uc002bgc.2_RNA|IL16_uc010blq.1_Missense_Mutation_p.S556C|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Missense_Mutation_p.S598C|IL16_uc002bgg.2_Missense_Mutation_p.S556C|IL16_uc002bgi.1_5'UTR|IL16_uc002bgj.2_Missense_Mutation_p.S50C|IL16_uc002bgk.2_5'Flank	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	556					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						GTGGTGCTTTCTATAGCATCC	0.612													3	18	---	---	---	---	PASS
ANPEP	290	broad.mit.edu	37	15	90347487	90347487	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90347487G>T	uc002bop.3	-	6	1468	c.1176C>A	c.(1174-1176)CAC>CAA	p.H392Q		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	392	Extracellular.|Metalloprotease.	Zinc; catalytic (By similarity).			angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	GGTCTACCTGGTGGGCCAGCT	0.642													38	46	---	---	---	---	PASS
TMEM204	79652	broad.mit.edu	37	16	1584307	1584307	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1584307G>A	uc002cmc.2	+	2	429	c.31G>A	c.(31-33)GTG>ATG	p.V11M	IFT140_uc002clz.2_Intron|IFT140_uc002cmb.2_Intron|TMEM204_uc002cmd.2_Missense_Mutation_p.V11M|TMEM204_uc010brr.1_Missense_Mutation_p.V11M	NM_024600	NP_078876	Q9BSN7	TM204_HUMAN	transmembrane protein 204	11	Helical; (Potential).				response to stress	adherens junction|integral to membrane					0		Hepatocellular(780;0.219)				GGCCGCGGCCGTGCTGGTGGC	0.682													4	27	---	---	---	---	PASS
PPL	5493	broad.mit.edu	37	16	4934186	4934186	+	Silent	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4934186C>A	uc002cyd.1	-	22	4560	c.4470G>T	c.(4468-4470)CTG>CTT	p.L1490L		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1490	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						CCGCCTTCTCCAGTGCAGCCA	0.637													4	30	---	---	---	---	PASS
PDILT	204474	broad.mit.edu	37	16	20396176	20396176	+	Intron	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20396176G>T	uc002dhc.1	-							NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis						cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						TGGGTTGTCTGAAAGAGTATG	0.493													7	116	---	---	---	---	PASS
TNRC6A	27327	broad.mit.edu	37	16	24801321	24801321	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24801321C>A	uc002dmm.2	+	6	1472	c.1358C>A	c.(1357-1359)CCA>CAA	p.P453Q	TNRC6A_uc010bxs.2_Missense_Mutation_p.P200Q|TNRC6A_uc010vcc.1_Missense_Mutation_p.P200Q|TNRC6A_uc002dmn.2_Missense_Mutation_p.P200Q|TNRC6A_uc002dmo.2_Missense_Mutation_p.P200Q	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	453	Sufficient for interaction with EIF2C2.|Sufficient for interaction with EIF2C1, EIF2C3 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		ATGACTGGACCAAATAACACT	0.438													10	15	---	---	---	---	PASS
GTF3C1	2975	broad.mit.edu	37	16	27504600	27504600	+	Missense_Mutation	SNP	T	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27504600T>A	uc002dov.1	-	17	2836	c.2796A>T	c.(2794-2796)GAA>GAT	p.E932D	GTF3C1_uc002dou.2_Missense_Mutation_p.E932D	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	932						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CGTTCAGAAATTCCTCCAGGT	0.552													4	12	---	---	---	---	PASS
PHKG2	5261	broad.mit.edu	37	16	30768035	30768035	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30768035G>A	uc002dzk.1	+	9	1019	c.926G>A	c.(925-927)CGG>CAG	p.R309Q	PHKG2_uc002dzi.1_Missense_Mutation_p.R313Q|PHKG2_uc002dzj.1_Missense_Mutation_p.R207Q	NM_000294	NP_000285	P15735	PHKG2_HUMAN	phosphorylase kinase, gamma 2 (testis)	309	Calmodulin-binding (domain-N) (By similarity).				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			ovary(1)	1			Colorectal(24;0.198)			CAGCGGTTCCGGGTAAGCCTG	0.627													10	53	---	---	---	---	PASS
C16orf93	90835	broad.mit.edu	37	16	30771646	30771646	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30771646G>T	uc002dzm.2	-	4	759	c.428C>A	c.(427-429)GCG>GAG	p.A143E	C16orf93_uc002dzn.2_Missense_Mutation_p.A143E|C16orf93_uc002dzo.2_Missense_Mutation_p.A106E|C16orf93_uc002dzp.2_Missense_Mutation_p.A143E|RNF40_uc002dzq.2_5'Flank|RNF40_uc010caa.2_5'Flank|RNF40_uc010cab.2_5'Flank|RNF40_uc010vfa.1_5'Flank|RNF40_uc002dzr.2_5'Flank|RNF40_uc010vfb.1_5'Flank	NM_001014979	NP_001014979	A1A4V9	CP093_HUMAN	hypothetical protein LOC90835	143											0						GGCACAAGCCGCTGACGTCTG	0.617													7	25	---	---	---	---	PASS
PLCG2	5336	broad.mit.edu	37	16	81953096	81953096	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81953096G>T	uc002fgt.2	+	20	2214	c.2062G>T	c.(2062-2064)GGC>TGC	p.G688C	PLCG2_uc010chg.1_Missense_Mutation_p.G688C	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	688	SH2 2.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						CAGGGCTAGGGGCAAGGTAAA	0.483													13	28	---	---	---	---	PASS
PLCG2	5336	broad.mit.edu	37	16	81953097	81953097	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81953097G>T	uc002fgt.2	+	20	2215	c.2063G>T	c.(2062-2064)GGC>GTC	p.G688V	PLCG2_uc010chg.1_Missense_Mutation_p.G688V	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	688	SH2 2.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						AGGGCTAGGGGCAAGGTAAAG	0.488													12	28	---	---	---	---	PASS
NF1	4763	broad.mit.edu	37	17	29653203	29653203	+	Missense_Mutation	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29653203A>T	uc002hgg.2	+	37	5534	c.5201A>T	c.(5200-5202)GAA>GTA	p.E1734V	NF1_uc002hgh.2_Missense_Mutation_p.E1713V|NF1_uc002hgi.1_Missense_Mutation_p.E746V|NF1_uc010cso.2_5'UTR	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1734	CRAL-TRIO.				actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TTGGCTTTAGAAGAGGACCTG	0.423			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			34	45	---	---	---	---	PASS
COL1A1	1277	broad.mit.edu	37	17	48266736	48266736	+	Splice_Site	SNP	A	G	G	rs113739104		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48266736A>G	uc002iqm.2	-	39	2955	c.2829_splice	c.e39+1	p.A943_splice		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein						axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GCTGGCACTTACAGCAGGACC	0.642			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						16	40	---	---	---	---	PASS
PRKCA	5578	broad.mit.edu	37	17	64299001	64299001	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:64299001C>T	uc002jfp.1	+	1	76	c.32C>T	c.(31-33)ACG>ATG	p.T11M	PRKCA_uc002jfo.1_Translation_Start_Site	NM_002737	NP_002728	P17252	KPCA_HUMAN	protein kinase C, alpha	11					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)	AACGACTCCACGGCGTCTCAG	0.592													15	18	---	---	---	---	PASS
RNMT	8731	broad.mit.edu	37	18	13752338	13752338	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13752338A>G	uc002ksk.1	+	9	1338	c.1271A>G	c.(1270-1272)AAT>AGT	p.N424S	RNMT_uc002ksl.1_Missense_Mutation_p.N424S|RNMT_uc002ksm.1_Missense_Mutation_p.N424S|RNMT_uc010dlk.2_Missense_Mutation_p.N424S|RNMT_uc010xae.1_RNA	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	424					mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						TATCCTGCAAATGAGAGTTCT	0.338													12	15	---	---	---	---	PASS
FHOD3	80206	broad.mit.edu	37	18	34298246	34298246	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34298246G>T	uc002kzt.1	+	15	2506	c.2409G>T	c.(2407-2409)ATG>ATT	p.M803I	FHOD3_uc002kzs.1_Missense_Mutation_p.M820I|FHOD3_uc010dmz.1_Missense_Mutation_p.M535I|FHOD3_uc010dna.1_Missense_Mutation_p.M123I	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	803					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				TCCAAGACATGGATTTCACTG	0.582													4	41	---	---	---	---	PASS
TCEB3B	51224	broad.mit.edu	37	18	44560772	44560772	+	Silent	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44560772A>T	uc002lcr.1	-	1	1217	c.864T>A	c.(862-864)GCT>GCA	p.A288A	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	288					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GGCCGCTGCCAGCTTGCCCCC	0.612													38	31	---	---	---	---	PASS
MED16	10025	broad.mit.edu	37	19	872083	872083	+	Silent	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:872083C>A	uc002lqd.1	-	12	2092	c.1941G>T	c.(1939-1941)CGG>CGT	p.R647R	MED16_uc010drw.1_Intron|MED16_uc002lqe.2_Silent_p.R636R|MED16_uc002lqf.2_Silent_p.R636R	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	647	WD 4.				androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|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)		AGGTGCCGTCCCGCAGAAAGC	0.662													6	7	---	---	---	---	PASS
CLEC17A	388512	broad.mit.edu	37	19	14720890	14720890	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14720890A>G	uc010dzn.1	+	14	1096	c.1019A>G	c.(1018-1020)GAG>GGG	p.E340G	CLEC17A_uc002mzh.1_Silent_p.R286R|CLEC17A_uc010xnt.1_RNA|CLEC17A_uc010xnu.1_3'UTR|CLEC17A_uc010dzo.1_Silent_p.R303R			Q6ZS10	CL17A_HUMAN	SubName: Full=CLEC17A protein;	340	C-type lectin.|Extracellular (Potential).					cell surface|integral to membrane	fucose binding|mannose binding|metal ion binding|receptor activity				0						tgggagccaGAGGAACCCAAT	0.229													13	34	---	---	---	---	PASS
EMR2	30817	broad.mit.edu	37	19	14883240	14883240	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14883240C>T	uc002mzp.1	-	5	725	c.269G>A	c.(268-270)GGG>GAG	p.G90E	EMR2_uc010xnw.1_Missense_Mutation_p.G90E|EMR2_uc002mzo.1_Missense_Mutation_p.G90E|EMR2_uc002mzq.1_Missense_Mutation_p.G90E|EMR2_uc002mzr.1_Missense_Mutation_p.G90E|EMR2_uc002mzs.1_Missense_Mutation_p.G90E|EMR2_uc002mzt.1_Missense_Mutation_p.G90E|EMR2_uc002mzu.1_Missense_Mutation_p.G90E|EMR2_uc010xnx.1_RNA|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	90	Extracellular (Potential).|EGF-like 2; calcium-binding.				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GTCGTAGCTCCCCTCTGTGTT	0.517													28	50	---	---	---	---	PASS
EMR2	30817	broad.mit.edu	37	19	14884827	14884827	+	Missense_Mutation	SNP	T	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14884827T>A	uc002mzp.1	-	4	578	c.122A>T	c.(121-123)AAT>ATT	p.N41I	EMR2_uc010xnw.1_Missense_Mutation_p.N41I|EMR2_uc002mzo.1_Missense_Mutation_p.N41I|EMR2_uc002mzq.1_Missense_Mutation_p.N41I|EMR2_uc002mzr.1_Missense_Mutation_p.N41I|EMR2_uc002mzs.1_Missense_Mutation_p.N41I|EMR2_uc002mzt.1_Missense_Mutation_p.N41I|EMR2_uc002mzu.1_Missense_Mutation_p.N41I|EMR2_uc010xnx.1_5'Flank|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	41	Extracellular (Potential).|EGF-like 1.				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GGCGGTGGCATTGACACACGA	0.587													14	67	---	---	---	---	PASS
C19orf2	8725	broad.mit.edu	37	19	30505964	30505964	+	Silent	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:30505964A>G	uc002nsr.2	+	11	1626	c.1596A>G	c.(1594-1596)CAA>CAG	p.Q532Q	C19orf2_uc002nsq.2_Intron|C19orf2_uc002nss.2_Silent_p.Q492Q|C19orf2_uc002nst.2_Silent_p.Q456Q	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	532					protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		CCAGATTGCAACAGAAAGACT	0.393													24	63	---	---	---	---	PASS
ZNF536	9745	broad.mit.edu	37	19	30935022	30935022	+	Missense_Mutation	SNP	C	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:30935022C>A	uc002nsu.1	+	2	691	c.553C>A	c.(553-555)CTG>ATG	p.L185M	ZNF536_uc010edd.1_Missense_Mutation_p.L185M	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	185					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCTGGGCAACCTGGGCAAGGG	0.667													6	13	---	---	---	---	PASS
ZNF30	90075	broad.mit.edu	37	19	35435155	35435155	+	Nonsense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35435155G>T	uc010edp.1	+	5	1663	c.1285G>T	c.(1285-1287)GAA>TAA	p.E429*	ZNF30_uc002nxf.2_Nonsense_Mutation_p.E348*|ZNF30_uc010edq.1_Nonsense_Mutation_p.E430*|ZNF30_uc010edr.1_Nonsense_Mutation_p.E430*	NM_194325	NP_919306	P17039	ZNF30_HUMAN	zinc finger protein 30 isoform b	429	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_lung(56;8.38e-08)|Lung NSC(56;1.31e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)	GBM - Glioblastoma multiforme(1328;0.0265)		GAAACCCTATGAATGTAAGGA	0.463													50	41	---	---	---	---	PASS
NLRP5	126206	broad.mit.edu	37	19	56565112	56565112	+	Missense_Mutation	SNP	C	A	A	rs61737647	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56565112C>A	uc002qmj.2	+	13	3237	c.3237C>A	c.(3235-3237)GAC>GAA	p.D1079E	NLRP5_uc002qmi.2_Missense_Mutation_p.D1060E	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	1079	LRR 12.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		CCCTGGGTGACGGTGGGGTTG	0.612													14	16	---	---	---	---	PASS
SNPH	9751	broad.mit.edu	37	20	1277858	1277858	+	Silent	SNP	T	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1277858T>A	uc002wes.2	+	4	356	c.120T>A	c.(118-120)TCT>TCA	p.S40S	SNPH_uc002wet.2_Silent_p.S84S	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	40	Poly-Ser.				synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						GCAGCAATTCTGGCTCCTACA	0.637													10	15	---	---	---	---	PASS
RBL1	5933	broad.mit.edu	37	20	35668651	35668651	+	Missense_Mutation	SNP	C	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35668651C>G	uc002xgi.2	-	14	1887	c.1808G>C	c.(1807-1809)GGA>GCA	p.G603A	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.G603A	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	603	Pocket; binds T and E1A.|Spacer.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				CTGCACATTTCCTCCATTTCC	0.388													35	25	---	---	---	---	PASS
C20orf111	51526	broad.mit.edu	37	20	42825791	42825791	+	Missense_Mutation	SNP	G	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42825791G>C	uc002xlk.2	-	4	917	c.780C>G	c.(778-780)TTC>TTG	p.F260L		NM_016470	NP_057554	Q9NX31	CT111_HUMAN	oxidative stress responsive 1	260											0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			CATCATCCACGAAGACTCGAG	0.493													25	19	---	---	---	---	PASS
TTC3	7267	broad.mit.edu	37	21	38568325	38568325	+	Missense_Mutation	SNP	C	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:38568325C>G	uc002yvz.2	+	42	5672	c.5567C>G	c.(5566-5568)CCA>CGA	p.P1856R	TTC3_uc002ywa.2_Missense_Mutation_p.P1856R|TTC3_uc002ywb.2_Missense_Mutation_p.P1856R|TTC3_uc010gnf.2_Missense_Mutation_p.P1621R|TTC3_uc002ywc.2_Missense_Mutation_p.P1546R	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1856					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				GTGGTATTCCCATGTTACAAC	0.428													8	27	---	---	---	---	PASS
KCNJ15	3772	broad.mit.edu	37	21	39672221	39672221	+	Silent	SNP	T	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:39672221T>C	uc002ywv.2	+	4	1340	c.1038T>C	c.(1036-1038)TCT>TCC	p.S346S	KCNJ15_uc002yww.2_Silent_p.S346S|KCNJ15_uc002ywx.2_Silent_p.S346S	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	346	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						GTGCAGATTCTGAGAAACAGC	0.438													20	31	---	---	---	---	PASS
PCNT	5116	broad.mit.edu	37	21	47746346	47746346	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47746346A>G	uc002zji.3	+	2	217	c.110A>G	c.(109-111)AAG>AGG	p.K37R	PCNT_uc002zjj.2_5'UTR|C21orf58_uc011afx.1_5'Flank|C21orf58_uc002zjf.2_5'Flank|C21orf58_uc010gqj.1_5'Flank|C21orf58_uc002zjg.1_5'Flank	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	37					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TCGGAGAAAAAGACGGCGAAG	0.512													17	28	---	---	---	---	PASS
CERK	64781	broad.mit.edu	37	22	47085971	47085971	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47085971G>T	uc003bia.2	-	12	1566	c.1459C>A	c.(1459-1461)CAC>AAC	p.H487N	CERK_uc010hae.2_Missense_Mutation_p.H289N	NM_022766	NP_073603	Q8TCT0	CERK1_HUMAN	ceramide kinase	487					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CAGGAGGGGTGGCTGCTGCAA	0.612													10	22	---	---	---	---	PASS
WWC3	55841	broad.mit.edu	37	X	10096089	10096089	+	Missense_Mutation	SNP	A	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:10096089A>T	uc004csx.3	+	16	2366	c.2168A>T	c.(2167-2169)CAT>CTT	p.H723L	WWC3_uc010nds.2_Missense_Mutation_p.H387L|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	723										ovary(4)	4						CTGCGCTGGCATTCCGTGCAG	0.562													34	8	---	---	---	---	PASS
FAM47C	442444	broad.mit.edu	37	X	37026510	37026510	+	Silent	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:37026510G>T	uc004ddl.1	+	1	41	c.27G>T	c.(25-27)CGG>CGT	p.R9R		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	9										ovary(3)	3						CGCAGGACCGGCCCAGTTCCC	0.657													7	2	---	---	---	---	PASS
SYN1	6853	broad.mit.edu	37	X	47464427	47464427	+	Missense_Mutation	SNP	C	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:47464427C>T	uc004die.2	-	5	853	c.724G>A	c.(724-726)GAA>AAA	p.E242K	SYN1_uc004did.2_Missense_Mutation_p.E242K	NM_006950	NP_008881	P17600	SYN1_HUMAN	synapsin I isoform Ia	242	C; actin-binding and synaptic-vesicle binding.					cell junction|Golgi apparatus	actin binding|ATP binding|ligase activity|transporter activity			ovary(1)	1						GGGAATTCTTCTGTCCCCAGT	0.458													11	3	---	---	---	---	PASS
ZC4H2	55906	broad.mit.edu	37	X	64137714	64137714	+	Silent	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:64137714G>T	uc004dvu.2	-	5	712	c.624C>A	c.(622-624)GCC>GCA	p.A208A	ZC4H2_uc004dvv.2_Silent_p.A185A|ZC4H2_uc011mov.1_Silent_p.A185A|ZC4H2_uc011mow.1_Missense_Mutation_p.P154Q|ZC4H2_uc004dvw.1_3'UTR	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	208							metal ion binding|protein binding			ovary(1)	1						ACCGACTCTTGGCCTTGCAAA	0.483													6	9	---	---	---	---	PASS
XIST	7503	broad.mit.edu	37	X	73069537	73069537	+	RNA	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73069537G>T	uc004ebm.1	-	1		c.3052C>A				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0						CTGAAGATCAGCAATGCCAAG	0.383													11	10	---	---	---	---	PASS
SATL1	340562	broad.mit.edu	37	X	84362449	84362449	+	Missense_Mutation	SNP	G	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:84362449G>C	uc011mqx.1	-	1	1526	c.1526C>G	c.(1525-1527)CCA>CGA	p.P509R	SATL1_uc004een.2_Missense_Mutation_p.P509R	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	322	Gln-rich.						N-acetyltransferase activity			breast(2)	2						GCTCCTGCCTGGTTGACTCAG	0.542													22	12	---	---	---	---	PASS
TEX13A	56157	broad.mit.edu	37	X	104464730	104464730	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:104464730G>T	uc004ema.2	-	2	464	c.352C>A	c.(352-354)CAG>AAG	p.Q118K	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Missense_Mutation_p.Q118K	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	118						intracellular	zinc ion binding			ovary(2)	2						TCCGTCTCCTGCTGCTCCCTG	0.607													10	5	---	---	---	---	PASS
CXorf61	203413	broad.mit.edu	37	X	115593951	115593951	+	Missense_Mutation	SNP	G	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:115593951G>A	uc004eqj.1	-	1	187	c.67C>T	c.(67-69)CGC>TGC	p.R23C		NM_001017978	NP_001017978	Q5H943	KKLC1_HUMAN	chromosome X open reading frame 61	23	Extracellular (Potential).					integral to membrane|plasma membrane					0						ACCTGAAAGCGGCGATATTTC	0.418													48	25	---	---	---	---	PASS
OCRL	4952	broad.mit.edu	37	X	128723821	128723821	+	Splice_Site	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:128723821G>T	uc004euq.2	+	23	2635	c.2470_splice	c.e23-1	p.V824_splice	OCRL_uc004eur.2_Splice_Site_p.V816_splice|OCRL_uc010nrb.2_Intron	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TTTAAAAACAGGTGATCTCCC	0.403													33	13	---	---	---	---	PASS
ZNF449	203523	broad.mit.edu	37	X	134494173	134494173	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:134494173G>T	uc004eys.2	+	5	894	c.729G>T	c.(727-729)GAG>GAT	p.E243D	ZNF449_uc004eyt.2_Missense_Mutation_p.E123D|ZNF449_uc004eyu.2_Missense_Mutation_p.E49D	NM_152695	NP_689908	Q6P9G9	ZN449_HUMAN	zinc finger protein 449	243					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					AAAAAATGGAGACTATGTATC	0.373													51	15	---	---	---	---	PASS
MCF2	4168	broad.mit.edu	37	X	138699860	138699860	+	Missense_Mutation	SNP	G	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:138699860G>T	uc004fau.2	-	8	1105	c.811C>A	c.(811-813)CTA>ATA	p.L271I	MCF2_uc004fav.2_Missense_Mutation_p.L271I|MCF2_uc011mwl.1_Missense_Mutation_p.L232I|MCF2_uc010nsh.1_Missense_Mutation_p.L271I|MCF2_uc011mwm.1_Missense_Mutation_p.L232I|MCF2_uc011mwn.1_Missense_Mutation_p.L416I|MCF2_uc004faw.2_Missense_Mutation_p.L331I|MCF2_uc011mwo.1_Missense_Mutation_p.L331I	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	271	Spectrin.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					TTTGATAATAGCTCCTGATTA	0.343													61	31	---	---	---	---	PASS
SLITRK4	139065	broad.mit.edu	37	X	142718645	142718645	+	Nonsense_Mutation	SNP	T	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:142718645T>A	uc004fbx.2	-	2	656	c.280A>T	c.(280-282)AAA>TAA	p.K94*	SLITRK4_uc004fby.2_Nonsense_Mutation_p.K94*	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	94	Extracellular (Potential).|LRR 2.					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TTCTGCAGTTTATTATTCCCC	0.358													32	18	---	---	---	---	PASS
CNGA2	1260	broad.mit.edu	37	X	150911817	150911817	+	Missense_Mutation	SNP	A	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:150911817A>G	uc004fey.1	+	7	1066	c.842A>G	c.(841-843)TAC>TGC	p.Y281C		NM_005140	NP_005131	Q16280	CNGA2_HUMAN	cyclic nucleotide gated channel alpha 2	281	Helical; Name=H4; (Potential).				response to stimulus|sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTTGTCCTCTACATCTTGGTC	0.502													44	24	---	---	---	---	PASS
IL9R	3581	broad.mit.edu	37	X	155235767	155235767	+	Missense_Mutation	SNP	G	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:155235767G>C	uc004fnv.1	+	7	980	c.801G>C	c.(799-801)TGG>TGC	p.W267C	IL9R_uc010nvn.2_Missense_Mutation_p.W246C|IL9R_uc004fnu.1_Missense_Mutation_p.W302C	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	267	Extracellular (Potential).				cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TCCCACCCTGGGGGTGGCCAG	0.637													9	19	---	---	---	---	PASS
C1orf159	54991	broad.mit.edu	37	1	1034764	1034765	+	Intron	INS	-	TTG	TTG	rs114570659	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1034764_1034765insTTG	uc001act.2	-						C1orf159_uc001acu.2_Intron|C1orf159_uc001acr.2_Intron|C1orf159_uc001acs.2_Intron|C1orf159_uc001acp.2_Intron	NM_017891	NP_060361	Q96HA4	CA159_HUMAN	hypothetical protein LOC54991							integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.96e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.77e-22)|Colorectal(212;6.51e-05)|COAD - Colon adenocarcinoma(227;0.000214)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|Kidney(185;0.00254)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		tttttggtCTATTCTAAGAATT	0.119													6	3	---	---	---	---	
PRDM16	63976	broad.mit.edu	37	1	3098294	3098295	+	Intron	INS	-	CA	CA	rs149978104	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3098294_3098295insCA	uc001akf.2	+						PRDM16_uc001akc.2_Intron|PRDM16_uc001akd.2_Intron|PRDM16_uc001ake.2_Intron|PRDM16_uc009vlh.2_Intron	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1						brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		tcttacacacggtcttacacac	0.000			T	EVI1	MDS|AML								2	4	---	---	---	---	
CCDC27	148870	broad.mit.edu	37	1	3685404	3685405	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3685404_3685405insT	uc001akv.2	+							NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27											skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		GGCCCAGCCCCTTGTGACCTCA	0.446													4	2	---	---	---	---	
ACOT7	11332	broad.mit.edu	37	1	6374988	6374990	+	Intron	DEL	CAT	-	-	rs111718590		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6374988_6374990delCAT	uc001ams.2	-						ACOT7_uc010nzq.1_Intron|ACOT7_uc001amt.2_Intron|ACOT7_uc001amu.2_Intron|ACOT7_uc001amv.2_Intron|ACOT7_uc001amq.2_Intron|ACOT7_uc001amr.2_Intron	NM_181864	NP_863654	O00154	BACH_HUMAN	acyl-CoA thioesterase 7 isoform hBACHb							mitochondrion|nucleus	carboxylesterase activity|fatty-acyl-CoA binding|palmitoyl-CoA hydrolase activity				0	Ovarian(185;0.0634)|all_lung(157;0.175)	all_cancers(23;1.42e-38)|all_epithelial(116;3.96e-23)|all_lung(118;3.69e-08)|Lung NSC(185;8.52e-07)|all_hematologic(16;6.92e-06)|Colorectal(325;4.53e-05)|Acute lymphoblastic leukemia(12;5e-05)|all_neural(13;0.000164)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0393)|Medulloblastoma(700;0.211)		Epithelial(90;9.16e-37)|GBM - Glioblastoma multiforme(13;5.89e-29)|OV - Ovarian serous cystadenocarcinoma(86;7.63e-19)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;2.06e-05)|Kidney(185;7.74e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00129)|BRCA - Breast invasive adenocarcinoma(365;0.00132)|STAD - Stomach adenocarcinoma(132;0.00195)|READ - Rectum adenocarcinoma(331;0.0481)		GCACACACACCATCATCAACCCT	0.596													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	14322577	14322578	+	IGR	INS	-	AGTGTGGT	AGTGTGGT	rs74314880		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:14322577_14322578insAGTGTGGT								PRDM2 (171005 upstream) : KAZ (602635 downstream)																							gaaggaagagcgtggcagccca	0.000													3	4	---	---	---	---	
ZBTB17	7709	broad.mit.edu	37	1	16277820	16277827	+	Intron	DEL	GAGGGAGG	-	-	rs113620578		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16277820_16277827delGAGGGAGG	uc001axl.3	-						ZBTB17_uc010obq.1_Intron|ZBTB17_uc010obr.1_Intron|ZBTB17_uc010obs.1_Intron|ZBTB17_uc010obt.1_Intron|ZBTB17_uc010obu.1_Intron|ZBTB17_uc009vom.1_Intron|ZBTB17_uc010obv.1_Intron|ZBTB17_uc009von.1_Intron	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17						negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		ggaagggagagagggagggagggagggG	0.375													1	5	---	---	---	---	
NBPF1	55672	broad.mit.edu	37	1	16926643	16926643	+	Intron	DEL	C	-	-	rs59187254		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16926643delC	uc009vos.1	-						NBPF1_uc001aza.3_RNA	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672							cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		taatacataacattacattTT	0.070													4	2	---	---	---	---	
CROCC	9696	broad.mit.edu	37	1	17098015	17098018	+	Intron	DEL	ACAG	-	-	rs72381779		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17098015_17098018delACAG	uc009voy.1	+									Q5TZA2	CROCC_HUMAN	Homo sapiens mRNA for KIAA0445 protein, partial cds.						cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		acacacacacacagacacacacac	0.098													4	2	---	---	---	---	
CROCC	9696	broad.mit.edu	37	1	17198146	17198147	+	Intron	DEL	AC	-	-	rs67531957		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17198146_17198147delAC	uc009voy.1	+									Q5TZA2	CROCC_HUMAN	Homo sapiens mRNA for KIAA0445 protein, partial cds.						cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		ACAAGCTCAGACAGCAGGACAA	0.351													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	22697127	22697127	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22697127delC								WNT4 (226742 upstream) : ZBTB40 (81217 downstream)																							ggcagtgctgcggaggagaat	0.000													4	2	---	---	---	---	
C1QA	712	broad.mit.edu	37	1	22960197	22960198	+	5'Flank	INS	-	AAAC	AAAC	rs149908835	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22960197_22960198insAAAC	uc001bfy.2	+							NM_015991	NP_057075	P02745	C1QA_HUMAN	complement component 1, q subcomponent, A chain						cell-cell signaling|complement activation, classical pathway|innate immune response	collagen|complement component C1 complex					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.41e-27)|Colorectal(126;1.52e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.63e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000541)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	AAATTTTCAGAAAACAAACAAA	0.455													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	27137225	27137225	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27137225delA								PIGV (12339 upstream) : ZDHHC18 (15976 downstream)																							ccagctgggtagtatcctgtc	0.000													4	2	---	---	---	---	
DNAJC8	22826	broad.mit.edu	37	1	28541339	28541339	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28541339delA	uc001bpn.2	-						DNAJC8_uc001bpo.2_Intron	NM_014280	NP_055095	O75937	DNJC8_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 8						nuclear mRNA splicing, via spliceosome|protein folding	nucleoplasm	heat shock protein binding|unfolded protein binding				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.08e-05)|all_lung(284;4.29e-05)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.0105)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		OV - Ovarian serous cystadenocarcinoma(117;2.81e-22)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00275)|BRCA - Breast invasive adenocarcinoma(304;0.0059)|STAD - Stomach adenocarcinoma(196;0.00671)|READ - Rectum adenocarcinoma(331;0.0649)		ACACAGCCTTAAAAAAAAGTT	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	30585302	30585302	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:30585302delC								PTPRU (931987 upstream) : MATN1 (598824 downstream)																							ACCCTGACTTCCTGTTGCTGA	0.547													5	3	---	---	---	---	
KPNA6	23633	broad.mit.edu	37	1	32612471	32612472	+	Intron	INS	-	T	T	rs149414871	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32612471_32612472insT	uc001bug.2	+						KPNA6_uc001buh.2_Intron|KPNA6_uc010ogx.1_Intron|KPNA6_uc010ogy.1_Intron	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6						NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				tgttttttgtgtttttttttga	0.000													1	5	---	---	---	---	
CSMD2	114784	broad.mit.edu	37	1	34617415	34617416	+	Intron	INS	-	C	C	rs150297416	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34617415_34617416insC	uc001bxn.1	-						CSMD2_uc001bxm.1_Intron	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2							integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				cctccctccctccccccccttc	0.139													2	4	---	---	---	---	
TMEM53	79639	broad.mit.edu	37	1	45101381	45101381	+	3'UTR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45101381delC	uc001cmb.1	-	4					RNF220_uc001clv.1_Intron|RNF220_uc001clw.1_Intron|RNF220_uc010okx.1_Intron|RNF220_uc010oky.1_Intron|RNF220_uc010okz.1_Intron|RNF220_uc001clx.1_Intron|RNF220_uc001cly.1_Intron|RNF220_uc001clz.1_Intron|RNF220_uc001cma.1_Intron			Q6P2H8	TMM53_HUMAN	SubName: Full=Transmembrane protein 53;							integral to membrane				ovary(2)	2	Acute lymphoblastic leukemia(166;0.155)					CCGCTCCCTTCCCCCGACACT	0.587													4	2	---	---	---	---	
OSBPL9	114883	broad.mit.edu	37	1	52251162	52251164	+	Intron	DEL	TGG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52251162_52251164delTGG	uc001cst.2	+						OSBPL9_uc001css.2_Intron|OSBPL9_uc001csx.2_Intron|OSBPL9_uc009vza.2_Intron|OSBPL9_uc001csu.2_Intron|OSBPL9_uc001csv.2_Intron|OSBPL9_uc001csw.2_Intron|OSBPL9_uc001csy.2_Intron|OSBPL9_uc001csz.2_Intron|OSBPL9_uc001cta.2_Intron|OSBPL9_uc001ctb.2_Intron	NM_024586	NP_078862	Q96SU4	OSBL9_HUMAN	oxysterol binding protein-like 9 isoform e						lipid transport		lipid binding			central_nervous_system(1)	1						agaatttcaatggtggttacgtc	0.099													1	6	---	---	---	---	
INADL	10207	broad.mit.edu	37	1	62516965	62516966	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62516965_62516966insT	uc001dab.2	+						INADL_uc009waf.1_Intron|INADL_uc001daa.2_Intron|INADL_uc001dad.3_Intron|INADL_uc001dac.2_Intron|INADL_uc010oot.1_Intron|INADL_uc009wag.2_Intron|INADL_uc010oou.1_Intron	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like						intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						AATCTCTCCTCtttttttttgt	0.218													4	2	---	---	---	---	
WLS	79971	broad.mit.edu	37	1	68636789	68636790	+	Intron	INS	-	G	G	rs150339257	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68636789_68636790insG	uc001def.1	-						uc001deb.1_Intron|uc001dec.1_Intron|WLS_uc001dee.2_Intron|WLS_uc001deg.1_Intron|WLS_uc009wbf.1_Intron	NM_024911	NP_079187	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 1						multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0						CTGAAATCCCTGTGCTAGATGG	0.381													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	82617152	82617159	+	IGR	DEL	AAGGAAGA	-	-	rs71692719	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:82617152_82617159delAAGGAAGA								LPHN2 (159046 upstream) : None (None downstream)																							ggaaggaaggaaggaagaaagaaagaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	142542604	142542613	+	IGR	DEL	GAGTGGGGTA	-	-	rs75788358	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142542604_142542613delGAGTGGGGTA								None (None upstream) : None (None downstream)																							gaatggaatggagtggggtagagtggagtg	0.048													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	142784487	142784488	+	Intron	INS	-	C	C	rs142084929		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142784487_142784488insC	uc001eiw.1	+											Homo sapiens PNAS-130 mRNA, complete cds.																		atcctcactctcccccccaccc	0.000													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	143516178	143516178	+	IGR	DEL	G	-	-	rs61824581		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:143516178delG								None (None upstream) : LOC100286793 (131461 downstream)																							AAAAGAAAAAGTCATATTCCC	0.284													4	4	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	144527399	144527400	+	Intron	INS	-	T	T	rs150558386		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:144527399_144527400insT	uc010oxr.1	+						NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818							cytoplasm					0						taattctttgattttttgtttt	0.000													8	4	---	---	---	---	
PDE4DIP	9659	broad.mit.edu	37	1	145008776	145008776	+	Intron	DEL	G	-	-	rs10719132		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145008776delG	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)		gacctcaggtgattcgctcac	0.045			T	PDGFRB	MPD								7	6	---	---	---	---	
SEC22B	9554	broad.mit.edu	37	1	145116299	145116300	+	3'UTR	INS	-	TT	TT	rs71696722		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145116299_145116300insTT	uc001eml.1	+	7					NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron	NM_004892	NP_004883	O75396	SC22B_HUMAN	SEC22 vesicle trafficking protein homolog B						ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane|melanosome	protein binding				0						TTGGGAAGGTGttttttttttt	0.317													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	146476728	146476729	+	IGR	DEL	AT	-	-	rs67696815		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146476728_146476729delAT								NBPF10 (52633 upstream) : LOC728989 (14166 downstream)																							TTATGGAGCAATAGAGAGGAAC	0.342													5	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	146895913	146895914	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146895913_146895914insA	uc001epp.2	-											Homo sapiens cDNA clone IMAGE:5266739.																		tctcctcctccaaagggacgca	0.000													0	6	---	---	---	---	
BCL9	607	broad.mit.edu	37	1	147056188	147056188	+	Intron	DEL	T	-	-	rs72499705		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:147056188delT	uc001epq.2	+							NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9						Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					cctctgtaactttttttttct	0.000			T	IGH@|IGL@	B-ALL								5	3	---	---	---	---	
GJA5	2702	broad.mit.edu	37	1	147247281	147247283	+	5'Flank	DEL	ACA	-	-	rs146644617		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:147247281_147247283delACA	uc001ept.1	-							NM_005266	NP_005257	P36382	CXA5_HUMAN	connexin 40						angiogenesis|cell-cell junction assembly|muscle contraction	integral to membrane				ovary(1)	1	all_hematologic(923;0.0276)		LUSC - Lung squamous cell carcinoma(543;0.202)			ATaatacaatacaatacaataca	0.084													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	148864013	148864013	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:148864013delC								NBPF16 (105702 upstream) : LOC645166 (64273 downstream)																							gatttataatcccaccccagc	0.000													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	148865937	148865938	+	IGR	INS	-	G	G	rs145651452	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:148865937_148865938insG								NBPF16 (107626 upstream) : LOC645166 (62348 downstream)																							AGCATTATCATAAAGTAATAAC	0.252													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	148877319	148877320	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:148877319_148877320insT	uc009wkv.1	+											Homo sapiens cDNA, FLJ17483.																		GACCTGTGCActttttttcttc	0.035													4	2	---	---	---	---	
LOC388692	388692	broad.mit.edu	37	1	149281933	149281934	+	RNA	INS	-	AGT	AGT	rs150270984	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149281933_149281934insAGT	uc010pbf.1	+	1		c.2458_2459insAGT				NR_027002				Homo sapiens cDNA FLJ13580 fis, clone PLACE1008851.												0						AAGATCTGTTGAGTAGGAACAT	0.342													5	3	---	---	---	---	
OTUD7B	56957	broad.mit.edu	37	1	149947055	149947055	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149947055delA	uc001etn.2	-							NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne						negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			gcccttgcataaactgtttat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	150493502	150493502	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150493502delC								ECM1 (7238 upstream) : ADAMTSL4 (28396 downstream)																							gtctcgaactcccgacctcag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	151902066	151902067	+	IGR	DEL	TG	-	-	rs78285144		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151902066_151902067delTG								THEM4 (19953 upstream) : S100A10 (53320 downstream)																							ccactatttttgtgtgtgtgtg	0.000													4	2	---	---	---	---	
SPRR1B	6699	broad.mit.edu	37	1	153002335	153002336	+	5'Flank	DEL	TG	-	-	rs17881363		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153002335_153002336delTG	uc001fba.2	+						SPRR1B_uc009wnx.1_5'Flank	NM_003125	NP_003116	P22528	SPR1B_HUMAN	small proline-rich protein 1B						keratinization|peptide cross-linking	cornified envelope|cytoplasm	protein binding, bridging|structural molecule activity			ovary(1)	1	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			gaattcaaactgagagttgggt	0.129													0	6	---	---	---	---	
KCNN3	3782	broad.mit.edu	37	1	154728252	154728253	+	Intron	DEL	GA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154728252_154728253delGA	uc001ffp.2	-						KCNN3_uc001ffo.2_Intron	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium							integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			ggtggaggaggagagagagagg	0.059													4	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	154892851	154892851	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154892851delT								KCNN3 (50097 upstream) : PMVK (4358 downstream)																							taaactgtacttttttttttt	0.000													4	2	---	---	---	---	
GBA	2629	broad.mit.edu	37	1	155207695	155207695	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155207695delA	uc001fjh.2	-						RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Intron|GBA_uc010pfx.1_Intron|GBA_uc001fji.2_Intron|GBA_uc001fjj.2_Intron|GBA_uc001fjk.2_Intron|GBA_uc001fjl.2_Intron|GBA_uc010pfy.1_Intron|GBA_uc009wqk.1_Intron	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor						carbohydrate metabolic process|cell death|cellular response to tumor necrosis factor|ceramide biosynthetic process|glucosylceramide catabolic process|lysosome organization|negative regulation of interleukin-6 production|negative regulation of MAP kinase activity|positive regulation of protein dephosphorylation|sphingosine biosynthetic process|termination of signal transduction	lysosomal lumen|lysosomal membrane	cation binding|glucosylceramidase activity|receptor binding			ovary(1)|skin(1)	2	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)		Alglucerase(DB00088)|Imiglucerase(DB00053)	actccttctcaaaaaaaaaaa	0.204									Gaucher_disease_type_I				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	159974359	159974360	+	IGR	INS	-	T	T	rs146824445		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159974359_159974360insT								SLAMF9 (50315 upstream) : PIGM (23102 downstream)																							AGTCTTTTTTCTTTTTTttttt	0.337													3	3	---	---	---	---	
SLAMF6	114836	broad.mit.edu	37	1	160478604	160478604	+	Intron	DEL	A	-	-	rs146938295		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160478604delA	uc001fwe.1	-						SLAMF6_uc001fwd.1_Intron|SLAMF6_uc010pjh.1_Intron|SLAMF6_uc010pji.1_Intron|SLAMF6_uc010pjj.1_Intron|SLAMF6_uc009wtm.1_Intron	NM_052931	NP_443163	Q96DU3	SLAF6_HUMAN	activating NK receptor precursor							integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	all_cancers(52;1.05e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0923)			aatttacaagaaaaaaaaaat	0.000													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	161451508	161451509	+	IGR	DEL	AC	-	-	rs35915296		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161451508_161451509delAC								C1orf192 (113844 upstream) : FCGR2A (23696 downstream)																							acacacacaaacacacacacac	0.292													2	4	---	---	---	---	
UAP1	6675	broad.mit.edu	37	1	162551567	162551567	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162551567delT	uc001gce.3	+							NM_003115	NP_003106	Q16222	UAP1_HUMAN	UDP-N-acetylglucosamine pyrophosphorylase 1						dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|nucleus|plasma membrane	UDP-N-acetylglucosamine diphosphorylase activity			ovary(2)|skin(2)|kidney(1)	5	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			ttaacccaacttttttcctgt	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	162786940	162786940	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162786940delT								HSD17B7 (4333 upstream) : C1orf110 (7308 downstream)																							cttatctaccttttttttttt	0.000													4	2	---	---	---	---	
LMX1A	4009	broad.mit.edu	37	1	165211704	165211705	+	Intron	INS	-	AA	AA	rs10624846		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:165211704_165211705insAA	uc001gcy.1	-						LMX1A_uc001gcz.1_Intron	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					CATAAAAAAGCAAAAAAAAAAA	0.252													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	172993062	172993062	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:172993062delG								FASLG (357052 upstream) : TNFSF18 (17298 downstream)																							tgtgaagtgagtttttttttt	0.000													4	2	---	---	---	---	
GLT25D2	23127	broad.mit.edu	37	1	183900931	183900931	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183900931delA	uc010poj.1	-							NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2						lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						GCAGCAAGTTAAAAAAAAAAA	0.294													3	3	---	---	---	---	
CRB1	23418	broad.mit.edu	37	1	197172093	197172094	+	Intron	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197172093_197172094delGT	uc010poz.1	+						ZBTB41_uc001gtx.1_5'Flank|ZBTB41_uc009wyz.1_5'Flank	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor						cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						tgtctttgtggtgtgtgtgtgt	0.000													4	2	---	---	---	---	
SHISA4	149345	broad.mit.edu	37	1	201856238	201856239	+	5'Flank	INS	-	TGGTT	TGGTT	rs112798870		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201856238_201856239insTGGTT	uc001gxa.2	+							NM_198149	NP_937792	Q96DD7	SHSA4_HUMAN	shisa homolog 4 precursor							integral to membrane					0						TAGGAAGGATGTGGtttggttt	0.371													4	2	---	---	---	---	
LGR6	59352	broad.mit.edu	37	1	202174542	202174543	+	Intron	DEL	AC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202174542_202174543delAC	uc001gxu.2	+						LGR6_uc001gxv.2_Intron|LGR6_uc009xab.2_Intron	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled							integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						acacctccaaacacacacacac	0.045													5	3	---	---	---	---	
SRGAP2	23380	broad.mit.edu	37	1	206583141	206583144	+	Intron	DEL	AAAA	-	-	rs113368415		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:206583141_206583144delAAAA	uc001hdy.2	+						SRGAP2_uc010prt.1_Intron|SRGAP2_uc001hdx.2_Intron|SRGAP2_uc010pru.1_Intron|SRGAP2_uc010prv.1_Intron	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2						axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					gactctgcctaaaaaaaaaaaaga	0.005													4	2	---	---	---	---	
LGTN	1939	broad.mit.edu	37	1	206766800	206766801	+	Intron	DEL	GA	-	-	rs71570017		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:206766800_206766801delGA	uc001heh.2	-						LGTN_uc009xbw.2_Intron	NM_006893	NP_008824	P41214	EIF2D_HUMAN	ligatin						intracellular protein transport	cytoplasm	protein binding|receptor activity|translation initiation factor activity				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			AAACTAAATGgagagagagaga	0.198													4	2	---	---	---	---	
LAMB3	3914	broad.mit.edu	37	1	209808734	209808737	+	Intron	DEL	TTTG	-	-	rs149541646		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209808734_209808737delTTTG	uc001hhg.2	-						LAMB3_uc009xco.2_Intron|LAMB3_uc001hhh.2_Intron|LAMB3_uc010psl.1_Intron|LAMB3_uc009xcp.1_Intron	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor						cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		TCTTCtgttttttgtttgtttgtt	0.235													4	2	---	---	---	---	
TRAF3IP3	80342	broad.mit.edu	37	1	209935222	209935223	+	Intron	INS	-	A	A	rs144296350	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209935222_209935223insA	uc001hho.2	+						TRAF3IP3_uc001hhl.2_Intron|TRAF3IP3_uc001hhm.1_Intron|TRAF3IP3_uc001hhn.2_Intron|TRAF3IP3_uc009xcr.2_Intron	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator							integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		GGTAGAGAGAGAAAAAAAAACA	0.302													10	5	---	---	---	---	
ESRRG	2104	broad.mit.edu	37	1	216741176	216741176	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216741176delC	uc001hkw.1	-						ESRRG_uc001hky.1_Intron|ESRRG_uc009xdp.1_Intron|ESRRG_uc001hkz.1_Intron|ESRRG_uc010puc.1_Intron|ESRRG_uc001hla.1_Intron|ESRRG_uc001hlb.1_Intron|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Intron|ESRRG_uc001hld.1_Intron|ESRRG_uc001hkx.1_Intron|ESRRG_uc009xdo.1_Intron|ESRRG_uc001hle.1_Intron	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1						positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	TGCTGTCGCTCCTCACAGACA	0.418													4	2	---	---	---	---	
SLC30A10	55532	broad.mit.edu	37	1	219938791	219938791	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:219938791delC	uc001hlu.1	-									Q6XR72	ZNT10_HUMAN	Synthetic construct DNA, clone: pF1KB7405, Homo sapiens SLC30A10 gene for solute carrier family 30, member 10, without stop codon, in Flexi system.						zinc ion transport	integral to membrane|plasma membrane	cation transmembrane transporter activity				0				GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.209)		GCATCCTTCTCAAGTACCTGC	0.453													0	6	---	---	---	---	
IARS2	55699	broad.mit.edu	37	1	220301776	220301776	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:220301776delA	uc001hmc.2	+							NM_018060	NP_060530	Q9NSE4	SYIM_HUMAN	mitochondrial isoleucine tRNA synthetase						isoleucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|isoleucine-tRNA ligase activity			ovary(2)|skin(2)	4				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	gcctagaagcaaaaacactat	0.000													4	2	---	---	---	---	
C1orf55	163859	broad.mit.edu	37	1	226182671	226182671	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226182671delG	uc001hpu.3	-						C1orf55_uc001hpv.2_Intron	NM_152608	NP_689821	Q6IQ49	CA055_HUMAN	hypothetical protein LOC163859											lung(1)	1	Breast(184;0.197)					cttgagttcaggaggtcaaag	0.010													4	2	---	---	---	---	
WNT9A	7483	broad.mit.edu	37	1	228116708	228116709	+	Intron	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228116708_228116709delGT	uc001hri.2	-							NM_003395	NP_003386	O14904	WNT9A_HUMAN	wingless-type MMTV integration site family,						anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|cornea development in camera-type eye|embryonic arm morphogenesis|embryonic skeletal joint morphogenesis|endoderm development|iris morphogenesis|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|neuron differentiation|positive regulation of smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding|signal transducer activity			central_nervous_system(1)|pancreas(1)	2		Prostate(94;0.0405)				CGCTGTGCACGTGTGTGTGTGT	0.500													4	2	---	---	---	---	
CHRM3	1131	broad.mit.edu	37	1	239969637	239969638	+	Intron	DEL	AC	-	-	rs112010872		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:239969637_239969638delAC	uc001hyp.2	+						CHRM3_uc001hyo.1_Intron	NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3						cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	GAGTTACACAACACACACACAC	0.431													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	248004058	248004058	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248004058delG								OR14A16 (25027 upstream) : OR11L1 (172 downstream)																							GTTTGATGGAGGCAGTTTATC	0.398													4	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	823297	823298	+	Intron	INS	-	T	T	rs144386222		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:823297_823298insT	uc002qwn.1	-						uc002qwo.1_Intron					Homo sapiens cDNA clone IMAGE:5174186.																		acttttttgtatttttttttta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	2488477	2488478	+	IGR	INS	-	GT	GT	rs144285592	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:2488477_2488478insGT								MYT1L (153432 upstream) : TSSC1 (704263 downstream)																							GCTGGGTGAGAgtgtgtgtgtg	0.292													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	2754218	2754218	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:2754218delA								MYT1L (419173 upstream) : TSSC1 (438523 downstream)																							GTATGGGGGGATGATGGGGTG	0.244													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	3783405	3783405	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3783405delT								ALLC (33147 upstream) : None (None downstream)																							GGTTTGACCATTTTTTTTTTT	0.328													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	4832012	4832012	+	IGR	DEL	A	-	-	rs67886027		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:4832012delA								None (None upstream) : None (None downstream)																							CAAGTATCTTAAAAAAAAGTA	0.348													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	7592023	7592023	+	IGR	DEL	T	-	-	rs112955523		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7592023delT								RNF144A (407716 upstream) : LOC339788 (470535 downstream)																							tgccccagccTTTTTTTTTTT	0.199													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	8371179	8371179	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8371179delT	uc010eww.1	-						uc002qyy.1_Intron					Homo sapiens cDNA FLJ45673 fis, clone D9OST2003989.																		TTAGCAGATCTTTAATACTCT	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	12176112	12176112	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:12176112delT	uc002rbu.1	+											Homo sapiens cDNA FLJ10696 fis, clone NT2RP3000484.																		GTTGGCTTTATTAGCAAGTTT	0.478													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	12607079	12607080	+	Intron	INS	-	CTTT	CTTT	rs139003702	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:12607079_12607080insCTTT	uc002rbu.1	+											Homo sapiens cDNA FLJ10696 fis, clone NT2RP3000484.																		ctccctccctccctccctcctt	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	16497899	16497900	+	IGR	INS	-	G	G	rs150867015	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:16497899_16497900insG								MYCN (410771 upstream) : FAM49A (236001 downstream)																							GCCCACCCACAGGGCATGTTTA	0.520													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	16870876	16870876	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:16870876delT								FAM49A (23780 upstream) : RAD51AP2 (821110 downstream)																							ctcatatcccttattccgtat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	17274759	17274762	+	IGR	DEL	CACA	-	-	rs10553506		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:17274759_17274762delCACA								FAM49A (427663 upstream) : RAD51AP2 (417224 downstream)																							TAATATACATcacacacacacaca	0.147													4	2	---	---	---	---	
VSNL1	7447	broad.mit.edu	37	2	17815079	17815079	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:17815079delA	uc002rcm.2	+							NM_003385	NP_003376	P62760	VISL1_HUMAN	visinin-like 1								calcium ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					caggggagagagttggaatat	0.000													4	10	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	20059560	20059568	+	IGR	DEL	CCACACTCA	-	-	rs113154057		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20059560_20059568delCCACACTCA								OSR1 (501188 upstream) : TTC32 (36950 downstream)																							GTTTGGATCCccacactcaccacactcac	0.445													4	2	---	---	---	---	
WDR35	57539	broad.mit.edu	37	2	20169510	20169510	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20169510delT	uc002rdi.2	-						WDR35_uc002rdj.2_Intron|WDR35_uc010ext.2_Intron|WDR35_uc002rdh.2_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)					GTTTCTTGAAttttttttttt	0.144													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	22410705	22410706	+	IGR	INS	-	G	G	rs142413556	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:22410705_22410706insG								None (None upstream) : None (None downstream)																							AGCGGGAGGTAGGGGGTGGGGG	0.515													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	23670916	23670917	+	IGR	DEL	GG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:23670916_23670917delGG								None (None upstream) : KLHL29 (84538 downstream)																							CCCATGCCTAGGTAAGTAAAAG	0.366													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	24731303	24731303	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24731303delA								ITSN2 (147906 upstream) : NCOA1 (55876 downstream)																							TTGCAATGACAAAAAAAAAGG	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	25409828	25409829	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25409828_25409829insT								POMC (18269 upstream) : DNMT3A (46017 downstream)																							ccatcccaaacttttttttttt	0.005													4	2	---	---	---	---	
C2orf70	339778	broad.mit.edu	37	2	26794796	26794800	+	Intron	DEL	AACTT	-	-	rs68041558		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26794796_26794800delAACTT	uc010eyn.2	+							NM_001105519	NP_001098989	A6NJV1	CB070_HUMAN	hypothetical protein LOC339778											skin(1)	1						atcttaatagaacttaactgaagag	0.005													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	26893710	26893713	+	IGR	DEL	AGGA	-	-	rs34815819		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26893710_26893713delAGGA								CIB4 (29499 upstream) : KCNK3 (21868 downstream)																							ggaaggagggaggaaggaaggaag	0.000													6	4	---	---	---	---	
CLIP4	79745	broad.mit.edu	37	2	29366267	29366267	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29366267delT	uc002rmv.2	+						CLIP4_uc002rmu.2_Intron|CLIP4_uc010ezm.1_Intron|CLIP4_uc002rmw.2_Intron|CLIP4_uc010ymn.1_Intron	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,											ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					cccttccctgttttttttttt	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	35331725	35331725	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:35331725delA								None (None upstream) : None (None downstream)																							GAGCTACTTGaaaaaaaaaaa	0.274													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	36412511	36412512	+	IGR	INS	-	A	A	rs146322348	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36412511_36412512insA								None (None upstream) : CRIM1 (170885 downstream)																							TTCATATCTGGACAACTTGCTT	0.386													4	3	---	---	---	---	
SFRS7	6432	broad.mit.edu	37	2	38975943	38975943	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38975943delT	uc002rqz.2	-						SFRS7_uc002rra.2_Intron|SFRS7_uc010ynp.1_Intron|GEMIN6_uc002rrb.2_5'Flank	NM_001031684	NP_001026854	Q16629	SRSF7_HUMAN	splicing factor, arginine/serine-rich 7						mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding|zinc ion binding				0		all_hematologic(82;0.248)				TTGTTGAGTATTTTTTTTTTT	0.264													4	2	---	---	---	---	
SLC8A1	6546	broad.mit.edu	37	2	40378409	40378410	+	Intron	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:40378409_40378410delGT	uc002rrx.2	-						uc002rrw.2_Intron|SLC8A1_uc002rry.2_Intron|SLC8A1_uc002rrz.2_Intron|SLC8A1_uc002rsa.2_Intron|SLC8A1_uc002rsd.3_Intron	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium						cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	tgtatggtgcgtgtgtgtgtgt	0.257													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	41312251	41312251	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:41312251delA								SLC8A1 (572676 upstream) : PKDCC (962910 downstream)																							catcagtttgaaaagagctcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	41432060	41432065	+	IGR	DEL	GATATT	-	-	rs147689722		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:41432060_41432065delGATATT								SLC8A1 (692485 upstream) : PKDCC (843096 downstream)																							TGATTTGAAAGATATTGAAAGCGGAT	0.252													1	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	42064321	42064321	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:42064321delT								None (None upstream) : PKDCC (210840 downstream)																							TCCCAATGTCTTAGACcagtg	0.269													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	42072962	42072963	+	IGR	DEL	CT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:42072962_42072963delCT								None (None upstream) : PKDCC (202198 downstream)																							TTATAAAGTGctctctctctct	0.356													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	42100674	42100674	+	IGR	DEL	G	-	-	rs57285135		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:42100674delG								None (None upstream) : PKDCC (174487 downstream)																							TCCCACCCCCGTTAGCAGAGA	0.368													4	3	---	---	---	---	
KCNG3	170850	broad.mit.edu	37	2	42672039	42672039	+	Intron	DEL	A	-	-	rs68171064		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:42672039delA	uc002rsn.2	-						KCNG3_uc002rsm.2_Intron	NM_133329	NP_579875	Q8TAE7	KCNG3_HUMAN	potassium voltage-gated channel, subfamily G,							endoplasmic reticulum|voltage-gated potassium channel complex	protein binding			central_nervous_system(1)	1						ccgtctccacaaaaaaaaaat	0.000													2	4	---	---	---	---	
KCNG3	170850	broad.mit.edu	37	2	42687341	42687342	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:42687341_42687342insA	uc002rsn.2	-						KCNG3_uc002rsm.2_Intron	NM_133329	NP_579875	Q8TAE7	KCNG3_HUMAN	potassium voltage-gated channel, subfamily G,							endoplasmic reticulum|voltage-gated potassium channel complex	protein binding			central_nervous_system(1)	1						cttatctctacaaaaaaaatag	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	43128600	43128601	+	IGR	DEL	CA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43128600_43128601delCA								HAAO (108849 upstream) : ZFP36L2 (320941 downstream)																							AGCTGTGACTCACAGGGTCCCT	0.376													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	43330878	43330878	+	IGR	DEL	T	-	-	rs77033258		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43330878delT								HAAO (311127 upstream) : ZFP36L2 (118664 downstream)																							ttttggggtgttttttttttt	0.159													5	3	---	---	---	---	
THADA	63892	broad.mit.edu	37	2	43503912	43503912	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43503912delT	uc002rsw.3	-						THADA_uc010far.2_Intron|THADA_uc002rsx.3_Intron|THADA_uc002rsy.3_Intron	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated								binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				TCACAGTGACTTGTGGCCTCT	0.478													6	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	45869193	45869196	+	IGR	DEL	AAAG	-	-	rs139764727		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:45869193_45869196delAAAG								SRBD1 (30760 upstream) : PRKCE (9847 downstream)																							acaaacaaaaaaagaaaCTAGAAG	0.206													4	2	---	---	---	---	
PRKCE	5581	broad.mit.edu	37	2	45889832	45889832	+	Intron	DEL	T	-	-	rs113093976		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:45889832delT	uc002rut.2	+							NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon						activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			CAGCTCCTGCTTTTTTTTTTC	0.418													6	3	---	---	---	---	
PRKCE	5581	broad.mit.edu	37	2	46167802	46167803	+	Intron	DEL	CT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46167802_46167803delCT	uc002rut.2	+							NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon						activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			CAAGTGTTCACTCTCACGTACC	0.426													1	7	---	---	---	---	
PRKCE	5581	broad.mit.edu	37	2	46385704	46385705	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46385704_46385705insA	uc002rut.2	+							NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon						activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			GCTTTGGTTCCAAGGGCATCAG	0.480													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	46861287	46861288	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46861287_46861288insA								CRIPT (8407 upstream) : SOCS5 (64811 downstream)																							aatttcgtctcaaaaaaaaaaa	0.035													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	47502281	47502282	+	Intron	INS	-	T	T	rs114767217		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:47502281_47502282insT	uc002rvu.1	-											Homo sapiens cDNA FLJ37024 fis, clone BRACE2010837.									p.?(1)									ttttctttttcttttttttttt	0.149													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	49646397	49646398	+	IGR	INS	-	AAC	AAC	rs145339074	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:49646397_49646398insAAC								FSHR (264767 upstream) : NRXN1 (499246 downstream)																							aaacaaaacaaaacaacaacaa	0.302													7	5	---	---	---	---	
NRXN1	9378	broad.mit.edu	37	2	50504540	50504547	+	Intron	DEL	TCCCTCCT	-	-	rs145171946	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:50504540_50504547delTCCCTCCT	uc010fbp.2	-						NRXN1_uc002rxb.3_Intron|NRXN1_uc010fbq.2_Intron|NRXN1_uc002rxe.3_Intron|NRXN1_uc002rxc.1_Intron	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor						angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			ccttccttcctccctccttcccttcctt	0.173													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	53694533	53694533	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:53694533delA								None (None upstream) : ASB3 (202585 downstream)																							actccatctcaaaaaaaaaaa	0.015													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	53707185	53707186	+	IGR	INS	-	TAAA	TAAA	rs144384240	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:53707185_53707186insTAAA								None (None upstream) : ASB3 (189932 downstream)																							agttaagagtgtacagagccag	0.144													2	4	---	---	---	---	
ACYP2	98	broad.mit.edu	37	2	54453603	54453604	+	Intron	INS	-	A	A	rs146423885	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54453603_54453604insA	uc002rxq.3	+							NM_138448	NP_612457	P14621	ACYP2_HUMAN	acylphosphatase 2						phosphate metabolic process		acylphosphatase activity				0						TTGATGTCAGGAAAAGAGTTGA	0.376													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	54621722	54621723	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54621722_54621723insA								C2orf73 (33008 upstream) : SPTBN1 (61731 downstream)																							aaggctgcaggaaaaaagaaaa	0.000													1	5	---	---	---	---	
SMEK2	57223	broad.mit.edu	37	2	55784202	55784203	+	Intron	INS	-	ACG	ACG	rs148610051	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:55784202_55784203insACG	uc002rzc.2	-						SMEK2_uc002rzb.2_Intron|SMEK2_uc002rzd.2_Intron|SMEK2_uc002ryz.2_Intron|SMEK2_uc002rza.2_Intron	NM_001122964	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 isoform 1							microtubule organizing center|nucleus	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			ctgtAacaacaacgacgacgac	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	57368783	57368786	+	IGR	DEL	TTAA	-	-	rs67602960		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:57368783_57368786delTTAA								CCDC85A (755475 upstream) : VRK2 (766000 downstream)																							CAGTGATTATTTAATTGAGTTAAT	0.181													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	58995558	58995558	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:58995558delT	uc002rzy.2	+											Homo sapiens cDNA FLJ30838 fis, clone FEBRA2002399.																		GTATACCGGCTTTTTTTTTTT	0.398													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	59626049	59626049	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:59626049delT								None (None upstream) : None (None downstream)																							atcaggagaatagcaccaaga	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	60374394	60374395	+	IGR	INS	-	A	A	rs59946855		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:60374394_60374395insA								None (None upstream) : BCL11A (303908 downstream)																							acaacaacaacaaaaaaaaaag	0.248													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	62019618	62019619	+	IGR	DEL	AG	-	-	rs67467173		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62019618_62019619delAG								XPO1 (254200 upstream) : FAM161A (32366 downstream)																							CTCTTTTTCAAGACCAAAACTT	0.460													4	2	---	---	---	---	
FAM161A	84140	broad.mit.edu	37	2	62057113	62057114	+	Intron	INS	-	A	A	rs71409293		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62057113_62057114insA	uc010ypo.1	-						FAM161A_uc002sbm.3_Intron|FAM161A_uc002sbn.3_Intron|FAM161A_uc010fcm.1_Intron	NM_032180	NP_115556	Q3B820	F161A_HUMAN	hypothetical protein LOC84140						response to stimulus|visual perception	centrosome				large_intestine(2)|ovary(1)	3						AAAAATGTACTAAAAAAAAAAA	0.332													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	62887237	62887238	+	Intron	INS	-	TACTGT	TACTGT	rs59896743		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62887237_62887238insTACTGT	uc002sbw.1	-											Homo sapiens cDNA clone IMAGE:5271366.																		gctgctgctgctgctcctgctg	0.079													4	5	---	---	---	---	
EHBP1	23301	broad.mit.edu	37	2	62949569	62949569	+	Intron	DEL	T	-	-	rs76850396		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62949569delT	uc002sby.2	+						EHBP1_uc010fcp.2_Intron|EHBP1_uc010fcq.1_Intron|EHBP1_uc002sbx.2_Intron|EHBP1_uc002sbz.2_Intron|EHBP1_uc002scb.2_Intron|EHBP1_uc002sca.2_Intron	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1							cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			aaaatagggattttttttttt	0.000									Hereditary_Prostate_Cancer				4	2	---	---	---	---	
EHBP1	23301	broad.mit.edu	37	2	63072226	63072227	+	Intron	DEL	TT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:63072226_63072227delTT	uc002sby.2	+						EHBP1_uc010fcp.2_Intron|EHBP1_uc002sbx.2_Intron|EHBP1_uc002sbz.2_Intron|EHBP1_uc002scb.2_Intron	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1							cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			gcagattatctttttttttttt	0.000									Hereditary_Prostate_Cancer				4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	65072013	65072013	+	IGR	DEL	A	-	-	rs141719147		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65072013delA								SERTAD2 (190967 upstream) : SLC1A4 (143566 downstream)																							aagagcagtTAAAAAAAAAAA	0.318													4	2	---	---	---	---	
MEIS1	4211	broad.mit.edu	37	2	66662876	66662878	+	5'UTR	DEL	TTT	-	-	rs2901852		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:66662876_66662878delTTT	uc002sdu.2	+	1					MEIS1_uc002sdt.2_5'UTR|MEIS1_uc002sdv.2_5'Flank|MEIS1_uc010yqh.1_5'Flank	NM_002398	NP_002389	O00470	MEIS1_HUMAN	Meis homeobox 1								sequence-specific DNA binding transcription factor activity				0						TTCGTCGTGCttttttttttttt	0.433													5	3	---	---	---	---	
ANTXR1	84168	broad.mit.edu	37	2	69249315	69249316	+	Intron	INS	-	C	C	rs141067415	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:69249315_69249316insC	uc002sfg.2	+						ANTXR1_uc002sfe.2_Intron|ANTXR1_uc002sff.2_Intron|ANTXR1_uc002sfd.2_Intron	NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor						actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						CAGCAGCAGAGCTCAGAGGATG	0.465									Familial_Infantile_Hemangioma				0	6	---	---	---	---	
C2orf42	54980	broad.mit.edu	37	2	70397879	70397879	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:70397879delA	uc002sgh.2	-							NM_017880	NP_060350	Q9NWW7	CB042_HUMAN	hypothetical protein LOC54980												0						gtgagactctaaaaaaaaaaa	0.095													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	73362426	73362427	+	IGR	INS	-	AAGG	AAGG			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73362426_73362427insAAGG								RAB11FIP5 (22280 upstream) : NOTO (66959 downstream)																							actctgtcaaaaaggaaggaag	0.000													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	73504775	73504776	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73504775_73504776insT								FBXO41 (6732 upstream) : EGR4 (13282 downstream)																							ATCAGAGGTACTTTTTTTTTTT	0.396													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	73548788	73548789	+	IGR	DEL	TT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73548788_73548789delTT								EGR4 (27959 upstream) : ALMS1 (64097 downstream)																							tctctctctctttttttttttg	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	79096957	79096957	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:79096957delT								SNAR-H (914805 upstream) : REG3G (155869 downstream)																							gggaagagtattttaaggggg	0.000													4	2	---	---	---	---	
RMND5A	64795	broad.mit.edu	37	2	87114016	87114017	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:87114016_87114017insA	uc002srs.3	+						uc010fgu.1_Intron			Q9H871	RMD5A_HUMAN	SubName: Full=cDNA FLJ10361 fis, clone NT2RM2001256, highly similar to Anaphase-promoting complex subunit 1;											ovary(1)|skin(1)	2						ccatctataccaaaaatataaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	88818533	88818534	+	IGR	INS	-	A	A	rs142641397	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:88818533_88818534insA								FOXI3 (66480 upstream) : C2orf51 (5635 downstream)																							CAAGTTCAGTTAACTATGTGGT	0.228													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	89861493	89861502	+	IGR	DEL	AGTAGAGTTA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89861493_89861502delAGTAGAGTTA								FLJ40330 (755368 upstream) : None (None downstream)																							attccattccagtagagttaattccattcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	95419502	95419503	+	IGR	INS	-	ACAA	ACAA	rs143206846		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:95419502_95419503insACAA								None (None upstream) : ANKRD20B (7172 downstream)																							cacatacacacacataaactca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	95526016	95526017	+	IGR	INS	-	T	T	rs140092020		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:95526016_95526017insT								ANKRD20B (3196 upstream) : TEKT4 (11215 downstream)																							GTCACAATAACttttttttttt	0.104													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	96517671	96517672	+	IGR	INS	-	T	T	rs74850741		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96517671_96517672insT								TRIM43 (252204 upstream) : LOC729234 (158627 downstream)																							CTACTGTGTCATTTTTCTACCT	0.277													5	4	---	---	---	---	
TMEM127	55654	broad.mit.edu	37	2	96928787	96928787	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96928787delT	uc002svq.2	-						TMEM127_uc002svr.2_Intron	NM_017849	NP_060319	O75204	TM127_HUMAN	transmembrane protein 127						negative regulation of cell proliferation|negative regulation of TOR signaling cascade	cytoplasm|integral to membrane|plasma membrane					0						AAGAAtttacttttttttttt	0.124									Pheochromocytoma_(Adrenal)_Familial				3	3	---	---	---	---	
VWA3B	200403	broad.mit.edu	37	2	98764577	98764577	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98764577delT	uc002syo.2	+						VWA3B_uc010yvh.1_Intron|VWA3B_uc002syj.2_Intron|VWA3B_uc002syk.1_Intron|VWA3B_uc002syl.1_Intron|VWA3B_uc002sym.2_Intron|VWA3B_uc002syn.1_Intron|VWA3B_uc010yvi.1_5'Flank	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B											ovary(3)|large_intestine(2)|skin(1)	6						gtagtttagattttttaaaac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	105353266	105353267	+	IGR	DEL	AG	-	-	rs72083462		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:105353266_105353267delAG								LOC150568 (224052 upstream) : POU3F3 (118702 downstream)																							aaagaaagaaaGAgagagagag	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	107393710	107393711	+	IGR	DEL	AA	-	-	rs67745397		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:107393710_107393711delAA								RGPD3 (308909 upstream) : ST6GAL2 (24347 downstream)																							aagtacagttaaagattgttat	0.015													4	3	---	---	---	---	
ST6GAL2	84620	broad.mit.edu	37	2	107450367	107450367	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:107450367delT	uc002tdq.2	-						ST6GAL2_uc002tdr.2_Intron|ST6GAL2_uc002tds.3_Intron	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide						growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						AATTATAAGATTGATAGAAAT	0.303													4	2	---	---	---	---	
GLI2	2736	broad.mit.edu	37	2	121586675	121586676	+	Intron	INS	-	CACC	CACC	rs144922326	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:121586675_121586676insCACC	uc010flp.2	+						GLI2_uc010yyu.1_Intron|GLI2_uc002tmp.1_Intron|GLI2_uc010fln.1_Intron|GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Intron|GLI2_uc002tmu.3_Intron|GLI2_uc002tmv.1_Intron|GLI2_uc010flo.1_Intron|GLI2_uc002tmw.1_Intron	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2						axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				ccacgcacctgcacccatgcac	0.134													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	122954010	122954011	+	IGR	INS	-	AAG	AAG	rs149620613	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122954010_122954011insAAG								TSN (428584 upstream) : None (None downstream)																							aagaaagaagaaagaagaagcc	0.000													2	4	---	---	---	---	
CNTNAP5	129684	broad.mit.edu	37	2	125009490	125009490	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:125009490delA	uc002tno.2	+						CNTNAP5_uc010flu.2_Intron	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor						cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		AAGACACAGCAGGTAAGCATG	0.443													4	2	---	---	---	---	
CNTNAP5	129684	broad.mit.edu	37	2	125402483	125402488	+	Intron	DEL	ACACAC	-	-	rs71938194		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:125402483_125402488delACACAC	uc002tno.2	+						CNTNAP5_uc010flu.2_Intron	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor						cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		acacacacatacacacacacacacac	0.311													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	127681628	127681628	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:127681628delT								GYPC (227383 upstream) : BIN1 (123979 downstream)																							acattaattcttcaaaaccat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	130006407	130006408	+	Intron	INS	-	TTTG	TTTG	rs147598952	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:130006407_130006408insTTTG	uc002tpv.1	-											Homo sapiens cDNA FLJ32036 fis, clone NTONG2000492.																		GAGTGGCCTTTtttgtttgttt	0.218													1	5	---	---	---	---	
SMPD4	55627	broad.mit.edu	37	2	130915598	130915598	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:130915598delA	uc002tqq.1	-						SMPD4_uc002tqo.1_5'Flank|SMPD4_uc002tqp.1_Intron|SMPD4_uc010yzy.1_Intron|SMPD4_uc010yzz.1_Intron|SMPD4_uc002tqr.1_Intron|SMPD4_uc002tqs.1_Intron|SMPD4_uc002tqt.1_Intron|SMPD4_uc010zaa.1_Intron|SMPD4_uc010zab.1_Intron|SMPD4_uc010zac.1_Intron|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2						sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	ctatagtcctaatgactcagg	0.000													4	2	---	---	---	---	
PTPN18	26469	broad.mit.edu	37	2	131129929	131129934	+	In_Frame_Del	DEL	GACGGG	-	-	rs112040677		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:131129929_131129934delGACGGG	uc002trc.2	+	13	1214_1219	c.1113_1118delGACGGG	c.(1111-1119)CAGACGGGG>CAG	p.TG378del	PTPN18_uc002trd.2_In_Frame_Del_p.TG357del|PTPN18_uc002trb.2_In_Frame_Del_p.TG271del|PTPN18_uc002tre.2_In_Frame_Del_p.TG29del	NM_014369	NP_055184	Q99952	PTN18_HUMAN	protein tyrosine phosphatase, non-receptor type	378_379				Missing (in Ref. 1; CAA56105).		cytoplasm|nucleus	non-membrane spanning protein tyrosine phosphatase activity			ovary(3)|kidney(1)	4	Colorectal(110;0.1)					gtgggacgcagacggggacggggacg	0.568													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	133024017	133024018	+	IGR	INS	-	AA	AA			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133024017_133024018insAA								NCRNA00164 (8475 upstream) : GPR39 (150129 downstream)																							gagagagacagacagacagata	0.035													4	2	---	---	---	---	
NCKAP5	344148	broad.mit.edu	37	2	134085314	134085314	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:134085314delT	uc002ttp.2	-						NCKAP5_uc002ttq.2_Intron|NCKAP5_uc002ttt.1_Intron|NCKAP5_uc002tts.1_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1								protein binding				0						TTTTccttccttagccttgga	0.124													4	2	---	---	---	---	
ZRANB3	84083	broad.mit.edu	37	2	136148395	136148395	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136148395delA	uc002tum.2	-						ZRANB3_uc002tuk.2_Intron|ZRANB3_uc002tul.2_Intron|ZRANB3_uc002tun.1_Intron	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3							intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		ATACACCTGGaaaaaaaaaaa	0.204													8	4	---	---	---	---	
THSD7B	80731	broad.mit.edu	37	2	137990482	137990483	+	Frame_Shift_Ins	INS	-	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:137990482_137990483insC	uc002tva.1	+	8	1836_1837	c.1836_1837insC	c.(1834-1839)TGTCCCfs	p.C612fs	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Frame_Shift_Ins_p.C502fs	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GAAAGCCATGTCCCCCTAGTCA	0.460													34	21	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	143205576	143205577	+	IGR	DEL	CT	-	-	rs10616985		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:143205576_143205577delCT								LRP1B (316306 upstream) : KYNU (429618 downstream)																							ACATGTCTACCTCTTTTTTTGC	0.307													1	5	---	---	---	---	
KCNJ3	3760	broad.mit.edu	37	2	155621217	155621217	+	Intron	DEL	A	-	-	rs66470371		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155621217delA	uc002tyv.1	+						KCNJ3_uc010zce.1_Intron	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3						synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	taatctaattaaaaaaaaaga	0.000													1	5	---	---	---	---	
BAZ2B	29994	broad.mit.edu	37	2	160430654	160430659	+	Intron	DEL	ACACAC	-	-	rs71406177	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160430654_160430659delACACAC	uc002uao.2	-						BAZ2B_uc002uap.2_Intron|BAZ2B_uc002uas.1_Intron|BAZ2B_uc002uau.1_Intron	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						acacacacatacacacacacacacac	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	167019892	167019892	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167019892delC	uc002udp.2	+											Homo sapiens, clone IMAGE:3681561, mRNA.																		aatgcatgcaccacttggggt	0.000													4	2	---	---	---	---	
PPIG	9360	broad.mit.edu	37	2	170457447	170457448	+	Intron	INS	-	A	A	rs143715099	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170457447_170457448insA	uc002uez.2	+						PPIG_uc010fpx.2_Intron|PPIG_uc010fpy.2_Intron|PPIG_uc002ufa.2_Intron|PPIG_uc002ufb.2_Intron|PPIG_uc002ufc.1_Intron|PPIG_uc002ufd.2_5'Flank	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G						protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	ATTCAAACCTTATACGTAAAGC	0.277													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	171018198	171018199	+	IGR	INS	-	TG	TG	rs138344160	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171018198_171018199insTG								UBR3 (77561 upstream) : MYO3B (16456 downstream)																							CATTCTTGATCtgtgtgtgtgt	0.307													4	2	---	---	---	---	
MYO3B	140469	broad.mit.edu	37	2	171403840	171403840	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171403840delA	uc002ufy.2	+						MYO3B_uc002ufz.2_Intron|MYO3B_uc002ufw.2_Intron|MYO3B_uc002ufx.2_Intron|MYO3B_uc002ugb.2_Intron	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2						response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						actctgtctcaaaaaaaaaaa	0.189													4	2	---	---	---	---	
PDE11A	50940	broad.mit.edu	37	2	178623902	178623903	+	Intron	DEL	CA	-	-	rs147033364		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:178623902_178623903delCA	uc002ulq.2	-						PDE11A_uc002ulp.2_Intron|PDE11A_uc002ulr.2_Intron|PDE11A_uc002uls.1_Intron|PDE11A_uc002ult.1_Intron|PDE11A_uc002ulu.1_Intron	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4						platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			GGAGCACGTGcacacacacaca	0.287									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				4	3	---	---	---	---	
CCDC141	285025	broad.mit.edu	37	2	179745918	179745919	+	Intron	DEL	TG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179745918_179745919delTG	uc002unf.1	-						CCDC141_uc002ung.2_Intron	NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141								protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			attccacttatgtgaaatatcc	0.109													1	6	---	---	---	---	
ANKAR	150709	broad.mit.edu	37	2	190541843	190541843	+	Intron	DEL	T	-	-	rs67184798		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190541843delT	uc002uqw.1	+						ANKAR_uc002uqu.2_Intron|ANKAR_uc002uqv.1_Intron	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing							integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			ACTTCTTAAATtttttttttt	0.169													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	197684433	197684433	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197684433delC								C2orf66 (9433 upstream) : PGAP1 (13296 downstream)																							tggtataatgcctggcacagt	0.249													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	208527348	208527349	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208527348_208527349insT								FAM119A (37283 upstream) : CCNYL1 (48915 downstream)																							AGATAGGATACtttttttttga	0.054													4	2	---	---	---	---	
IGFBP5	3488	broad.mit.edu	37	2	217541831	217541832	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:217541831_217541832insT	uc002vgj.3	-							NM_000599	NP_000590	P24593	IBP5_HUMAN	insulin-like growth factor binding protein 5						negative regulation of insulin-like growth factor receptor signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of translation|signal transduction		insulin-like growth factor I binding				0		Renal(323;0.0822)		Epithelial(149;2.1e-06)|all cancers(144;0.000165)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCTTTCTTTCCttttttttttt	0.252													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	223610600	223610601	+	IGR	DEL	CT	-	-	rs146821306	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:223610600_223610601delCT								MOGAT1 (35951 upstream) : ACSL3 (115131 downstream)																							GACCGCCCCCCTCCCcacacac	0.416													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	231436150	231436150	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231436150delC								SP100 (25833 upstream) : CAB39 (141407 downstream)																							ctaaagcagaccttctgcctg	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	232452816	232452830	+	IGR	DEL	AGGGAAGGGAAAGGA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232452816_232452830delAGGGAAGGGAAAGGA								NMUR1 (57634 upstream) : C2orf57 (4782 downstream)																							agggaaaaggagggaagggaaaggaagggaaggga	0.009													3	3	---	---	---	---	
IQCA1	79781	broad.mit.edu	37	2	237395124	237395124	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:237395124delA	uc002vvz.1	-						IQCA1_uc002vwb.2_Intron|IQCA1_uc002vwa.1_Intron|IQCA1_uc010zni.1_Intron	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1								ATP binding			ovary(1)	1						CCAGCACCAGAAAAAAAAAAA	0.318													4	2	---	---	---	---	
KIF1A	547	broad.mit.edu	37	2	241761761	241761761	+	5'Flank	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241761761delT	uc002vzy.2	-						KIF1A_uc010fzk.2_5'Flank|KIF1A_uc002vzz.1_5'Flank	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)		gatgatctccttttaaaccca	0.000													4	2	---	---	---	---	
RAF1	5894	broad.mit.edu	37	3	12633425	12633425	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12633425delT	uc003bxf.3	-						RAF1_uc011aut.1_Intron|RAF1_uc011auu.1_Intron	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog						activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	AAATTTCCAAttttttttttt	0.169			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				3	4	---	---	---	---	
IQSEC1	9922	broad.mit.edu	37	3	13085090	13085090	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:13085090delC	uc011auw.1	-							NM_001134382	NP_001127854	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform a						regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						ctgattctttccatgggacat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	17971051	17971052	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:17971051_17971052insT								TBC1D5 (186811 upstream) : SATB1 (418214 downstream)																							TCAGAGGGTAATTTTTTTTTTC	0.312													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	40693948	40693948	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40693948delG								ZNF621 (112905 upstream) : CTNNB1 (542453 downstream)																							GCATCAGAAAGGGCATCAGGA	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	43769095	43769098	+	IGR	DEL	TTTG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:43769095_43769098delTTTG								ABHD5 (4879 upstream) : MIR138-1 (386606 downstream)																							ACTACtgttttttgtttgtttgtt	0.157													4	2	---	---	---	---	
CCR3	1232	broad.mit.edu	37	3	46307342	46307343	+	Frame_Shift_Ins	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46307342_46307343insA	uc003cpg.1	+	4	1236_1237	c.693_694insA	c.(691-696)AGTAAAfs	p.S231fs	CCR3_uc003cpi.1_Frame_Shift_Ins_p.S231fs|CCR3_uc003cpj.1_Frame_Shift_Ins_p.S231fs|CCR3_uc003cpk.1_Frame_Shift_Ins_p.S252fs|CCR3_uc010hjb.1_Frame_Shift_Ins_p.S249fs|CCR3_uc003cpl.1_Frame_Shift_Ins_p.S264fs	NM_178329	NP_847899	P51677	CCR3_HUMAN	CC chemokine receptor 3 isoform 1	231_232	Cytoplasmic (Potential).				cell adhesion|cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|inflammatory response|interspecies interaction between organisms|positive regulation of angiogenesis	integral to plasma membrane				ovary(3)|lung(3)|breast(1)|kidney(1)	8				BRCA - Breast invasive adenocarcinoma(193;0.00119)|KIRC - Kidney renal clear cell carcinoma(197;0.0183)|Kidney(197;0.0216)		GGTGCCCCAGTAAAAAAAAGTA	0.465													21	20	---	---	---	---	
LRRC2	79442	broad.mit.edu	37	3	46603035	46603038	+	Intron	DEL	AAAG	-	-	rs71902020		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46603035_46603038delAAAG	uc010hji.2	-						LRRC2_uc003cpu.3_Intron	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2											ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		aaaaaaacaaaaagagaGGGGAGA	0.299													5	3	---	---	---	---	
PRKCD	5580	broad.mit.edu	37	3	53225991	53225991	+	Intron	DEL	T	-	-	rs111257956		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53225991delT	uc003dgl.2	+						PRKCD_uc003dgm.2_Intron	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta						activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)		TTCAGGCTGCTAGGGGAGGCT	0.622													4	2	---	---	---	---	
MAGI1	9223	broad.mit.edu	37	3	65745823	65745824	+	Intron	INS	-	TCC	TCC	rs140604139	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:65745823_65745824insTCC	uc003dmn.2	-						MAGI1_uc003dmm.2_Intron|MAGI1_uc003dmo.2_Intron|MAGI1_uc003dmp.2_Intron|MAGI1_uc010hny.2_Intron|MAGI1_uc003dmr.2_Intron	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ						cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		TGTCTTCAACTtcctcctcctc	0.045													3	5	---	---	---	---	
FAM19A1	407738	broad.mit.edu	37	3	68071816	68071817	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:68071816_68071817insA	uc003dnd.2	+						FAM19A1_uc003dne.2_Intron|FAM19A1_uc003dng.2_Intron	NM_213609	NP_998774	Q7Z5A9	F19A1_HUMAN	family with sequence similarity 19 (chemokine							endoplasmic reticulum|extracellular region				ovary(1)	1		Lung NSC(201;0.0117)		BRCA - Breast invasive adenocarcinoma(55;7.7e-05)|Epithelial(33;0.000937)|KIRC - Kidney renal clear cell carcinoma(39;0.0579)|Kidney(39;0.0743)		CAGAATTAGAGAAAATCAGAAG	0.371													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	75908941	75908942	+	IGR	INS	-	A	A	rs144875585		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75908941_75908942insA								ZNF717 (74271 upstream) : None (None downstream)																							ttgaatcacccaaagacaactt	0.000													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	96048853	96048853	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:96048853delT								None (None upstream) : EPHA6 (484572 downstream)																							atgaccctacttttaaaattt	0.119													4	2	---	---	---	---	
COL8A1	1295	broad.mit.edu	37	3	99487404	99487404	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:99487404delC	uc003dtg.1	+						COL8A1_uc003dth.1_Intron|COL8A1_uc003dti.1_Intron	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor						angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						ttaagggtctcctttagatct	0.124													4	2	---	---	---	---	
GPR128	84873	broad.mit.edu	37	3	100369950	100369950	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100369950delA	uc003duc.2	+						GPR128_uc011bhc.1_Intron	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						TTTTCACATTAAATGAGTCTC	0.095													4	2	---	---	---	---	
ABI3BP	25890	broad.mit.edu	37	3	100471886	100471886	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100471886delT	uc003dun.2	-						ABI3BP_uc003duj.2_Intron|ABI3BP_uc003duk.2_Intron|ABI3BP_uc003dul.2_Intron|ABI3BP_uc011bhd.1_Intron|ABI3BP_uc003dum.2_Intron	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein							extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						TGCTGATACCTTTTTTTCCCC	0.353													14	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	110594210	110594210	+	IGR	DEL	G	-	-	rs111404813		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:110594210delG								None (None upstream) : PVRL3 (196655 downstream)																							GCATGCTGGTGGGGAAGGAAG	0.323													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	110953869	110953869	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:110953869delA								PVRL3 (41496 upstream) : CD96 (307057 downstream)																							ctccaaaaggagaaggaaata	0.000													4	2	---	---	---	---	
LSAMP	4045	broad.mit.edu	37	3	115915977	115915978	+	Intron	INS	-	AC	AC	rs10650049		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:115915977_115915978insAC	uc003ebt.2	-						LSAMP_uc011bis.1_Intron	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein						cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		ATCCCACTCGGacacacacaca	0.376													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	116318037	116318037	+	IGR	DEL	T	-	-	rs149225518		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:116318037delT								LSAMP (794019 upstream) : LOC285194 (110598 downstream)																							CCCCCCACCCttttttttttc	0.269													4	2	---	---	---	---	
B4GALT4	8702	broad.mit.edu	37	3	118960833	118960833	+	5'Flank	DEL	C	-	-	rs10712125		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:118960833delC	uc003ecg.2	-						B4GALT4_uc003ece.1_5'Flank|B4GALT4_uc003ech.2_5'Flank|B4GALT4_uc003eci.2_5'Flank|B4GALT4_uc011biy.1_5'Flank	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-						membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)	gtcctcgtctcccctttgcat	0.090													7	4	---	---	---	---	
STXBP5L	9515	broad.mit.edu	37	3	120972102	120972102	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:120972102delA	uc003eec.3	+						STXBP5L_uc011bji.1_Intron	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like						exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		aaaacattgcaaaaaaaaaaa	0.104													4	3	---	---	---	---	
PARP15	165631	broad.mit.edu	37	3	122331216	122331216	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122331216delT	uc003efm.2	+						PARP15_uc003efn.2_Intron|PARP15_uc003efo.1_Intron	NM_001113523	NP_001106995	Q460N3	PAR15_HUMAN	poly (ADP-ribose) polymerase family, member 15						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)		ATTCTCTCTCTTTTTTTTTTT	0.065													3	4	---	---	---	---	
MYLK	4638	broad.mit.edu	37	3	123564321	123564321	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:123564321delT	uc003ego.2	-						MYLK_uc003egp.2_Intron|MYLK_uc003egq.2_Intron|MYLK_uc003egr.2_Intron|MYLK_uc003egs.2_Intron	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1						aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CATGAGCACCTTTTGGGTttt	0.249													4	2	---	---	---	---	
CCDC37	348807	broad.mit.edu	37	3	126147212	126147215	+	Intron	DEL	AAAG	-	-	rs140692547		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126147212_126147215delAAAG	uc003eiu.1	+						CCDC37_uc010hsg.1_Intron	NM_182628	NP_872434	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37											ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.166)		agagagggataaagagagagaaag	0.000													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	126825510	126825511	+	IGR	INS	-	C	C	rs146668994	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126825510_126825511insC								PLXNA1 (69282 upstream) : TPRA1 (466397 downstream)																							AGTACCCTGCACCCTGCAACCG	0.594													1	5	---	---	---	---	
EEFSEC	60678	broad.mit.edu	37	3	128067095	128067096	+	Intron	DEL	GC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:128067095_128067096delGC	uc003eki.2	+						EEFSEC_uc003ekj.2_Intron	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,							cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						AAgtgtgcatgcgtgtgtgtgt	0.109													4	2	---	---	---	---	
PLXND1	23129	broad.mit.edu	37	3	129309151	129309151	+	Intron	DEL	T	-	-	rs11322894		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129309151delT	uc003emx.2	-							NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor						axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						ATGTCCGGGCTGTTCCCTGAA	0.547													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	129357419	129357419	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129357419delT								PLXND1 (31837 upstream) : TMCC1 (9218 downstream)																							tccttccGTCTTTTTTTTTTC	0.055													4	2	---	---	---	---	
TMCC1	23023	broad.mit.edu	37	3	129479245	129479246	+	Intron	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129479245_129479246delGT	uc003emz.3	-						TMCC1_uc011blc.1_Intron|TMCC1_uc010htg.2_Intron	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1							integral to membrane				skin(1)	1						cgccaggctagtgtgtgtgtgt	0.000													6	4	---	---	---	---	
COL6A4P2	646300	broad.mit.edu	37	3	129929016	129929016	+	5'Flank	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129929016delC	uc011blf.1	+							NR_027898				Homo sapiens collagen VI alpha 4 pseudogene 2 (COL6A4P2), non-coding RNA.												0						ctattaatgtccttggcacac	0.000													4	2	---	---	---	---	
DNAJC13	23317	broad.mit.edu	37	3	132193659	132193661	+	Intron	DEL	CCC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:132193659_132193661delCCC	uc003eor.2	+							NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13								heat shock protein binding			ovary(1)|breast(1)	2						AAAATCTATTCCCCCCCCCCCCT	0.197													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	135390759	135390760	+	IGR	DEL	TG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135390759_135390760delTG								EPHB1 (411454 upstream) : PPP2R3A (293807 downstream)																							acatacacactgtgtgtgtgta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	137145059	137145060	+	IGR	INS	-	AGAA	AGAA			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:137145059_137145060insAGAA								IL20RB (415139 upstream) : SOX14 (338519 downstream)																							gcatctagatgagaaagaaaga	0.000													4	2	---	---	---	---	
ARMC8	25852	broad.mit.edu	37	3	138014352	138014352	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138014352delA	uc003esa.1	+						TXNDC6_uc003esd.1_Intron|TXNDC6_uc010huf.1_Intron|TXNDC6_uc003ese.1_Intron|ARMC8_uc011bmf.1_Intron|ARMC8_uc011bmg.1_Intron|ARMC8_uc011bmh.1_Intron|ARMC8_uc003esb.1_Intron|ARMC8_uc003esc.1_Intron|ARMC8_uc003esf.1_Intron	NM_015396	NP_056211	Q8IUR7	ARMC8_HUMAN	armadillo repeat containing 8 isoform 2								binding				0						tggcagtaagaaaaagtaaag	0.169													4	2	---	---	---	---	
ESYT3	83850	broad.mit.edu	37	3	138169157	138169157	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138169157delT	uc003esk.2	+						ESYT3_uc010hug.2_Intron	NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain							integral to membrane|plasma membrane					0						TTGCCTTCCATTTGCCTGGTT	0.517													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	138495540	138495541	+	IGR	INS	-	AAAC	AAAC			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138495540_138495541insAAAC								PIK3CB (17355 upstream) : FOXL2 (167526 downstream)																							cctgtctcaaaaaacaaacaaa	0.010													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	138618940	138618941	+	IGR	INS	-	A	A	rs111517122		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138618940_138618941insA								PIK3CB (140755 upstream) : FOXL2 (44126 downstream)																							cccgtctctacaaaaaaaaaat	0.000													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	141388175	141388175	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141388175delA								RASA2 (56978 upstream) : RNF7 (68876 downstream)																							aaaacaaaacaaaaaaaaaag	0.000													2	5	---	---	---	---	
GK5	256356	broad.mit.edu	37	3	141905473	141905473	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141905473delT	uc003euq.1	-						GK5_uc010hus.1_Intron	NM_001039547	NP_001034636	Q6ZS86	GLPK5_HUMAN	glycerol kinase 5 (putative)						glycerol metabolic process		ATP binding|glycerol kinase activity				0						GTGTAttttcttttttttttt	0.124													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	141969571	141969572	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141969571_141969572insA								GK5 (25143 upstream) : XRN1 (55879 downstream)																							atcaaaaaaacaacaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	145550975	145550975	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:145550975delA								None (None upstream) : PLOD2 (236253 downstream)																							caagatgtggaattagcataa	0.020													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	145719561	145719562	+	IGR	DEL	AC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:145719561_145719562delAC								None (None upstream) : PLOD2 (67666 downstream)																							TAacacagaaacacacacacac	0.213													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	146148661	146148661	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:146148661delC								PLSCR4 (179695 upstream) : PLSCR2 (2421 downstream)																							GAAATTCCTTCCCAATACAAA	0.498													3	9	---	---	---	---	
PLSCR2	57047	broad.mit.edu	37	3	146213571	146213574	+	Intron	DEL	TAGG	-	-	rs72286809		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:146213571_146213574delTAGG	uc003evv.1	-						PLSCR2_uc003evw.1_Intron	NM_020359	NP_065092	Q9NRY7	PLS2_HUMAN	phospholipid scramblase 2						phospholipid scrambling	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity				0						AGGTCCCCATTAGGTAGTTCGTGA	0.235													3	3	---	---	---	---	
WWTR1	25937	broad.mit.edu	37	3	149392023	149392024	+	Intron	DEL	TC	-	-	rs35099857		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:149392023_149392024delTC	uc003exh.2	-							NM_015472	NP_056287	Q9GZV5	WWTR1_HUMAN	WW domain containing transcription regulator 1						hippo signaling cascade|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of protein kinase activity|negative regulation of protein phosphorylation|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|regulation of SMAD protein import into nucleus|stem cell division|transcription, DNA-dependent	cytoplasm	transcription coactivator activity			breast(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			tctgtctctgtctctctctctc	0.054													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	149436618	149436618	+	IGR	DEL	T	-	-	rs112189652		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:149436618delT								WWTR1 (15503 upstream) : COMMD2 (19642 downstream)																							ttcttcttcattttttttttc	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	149525932	149525932	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:149525932delT								C3orf16 (15322 upstream) : RNF13 (4543 downstream)																							tgtgagtttattatagggagc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	151261063	151261063	+	IGR	DEL	A	-	-	rs11294015		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151261063delA								IGSF10 (84566 upstream) : AADACL2 (190641 downstream)																							aagatcactcagggggccata	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	152820189	152820189	+	IGR	DEL	C	-	-	rs11313473		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:152820189delC								P2RY1 (264348 upstream) : RAP2B (59840 downstream)																							TTCATGCTTACTGTCCCTCTG	0.184													3	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	153808647	153808647	+	Intron	DEL	C	-	-	rs5853674		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:153808647delC	uc003ezu.1	-											Homo sapiens cDNA clone IMAGE:4823793.																		ttcaagtgatctgcccgtctt	0.000													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	154489191	154489191	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:154489191delA								GPR149 (341687 upstream) : MME (252722 downstream)																							aaatgggtgcagtcacttggg	0.000													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	155153438	155153438	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155153438delT								MME (251920 upstream) : PLCH1 (44233 downstream)																							AAGGGTGATCTTTTTTTCCCC	0.418													3	3	---	---	---	---	
KCNAB1	7881	broad.mit.edu	37	3	156229476	156229478	+	Intron	DEL	ACA	-	-	rs140049063		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:156229476_156229478delACA	uc003far.2	+						KCNAB1_uc011bon.1_Intron|KCNAB1_uc003fas.2_Intron|KCNAB1_uc003fat.2_Intron|KCNAB1_uc010hvt.1_Intron|KCNAB1_uc011boo.1_Intron	NM_172160	NP_751892	Q14722	KCAB1_HUMAN	potassium voltage-gated channel, shaker-related							cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			tgcctagaatacaacaatacctt	0.000													4	5	---	---	---	---	
C3orf55	152078	broad.mit.edu	37	3	157262099	157262099	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:157262099delC	uc003fbp.3	+						C3orf55_uc011bos.1_Intron|C3orf55_uc003fbo.2_Intron|C3orf55_uc011bot.1_Intron|C3orf55_uc010hvv.2_Intron	NM_001130002	NP_001123474	A1A4F0	CC055_HUMAN	hypothetical protein LOC152078 isoform 1												0			Lung(72;0.0215)|LUSC - Lung squamous cell carcinoma(72;0.037)			gctttggcctcccaacatgct	0.070													4	2	---	---	---	---	
C3orf55	152078	broad.mit.edu	37	3	157297138	157297138	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:157297138delT	uc003fbp.3	+						C3orf55_uc010hvv.2_Intron	NM_001130002	NP_001123474	A1A4F0	CC055_HUMAN	hypothetical protein LOC152078 isoform 1												0			Lung(72;0.0215)|LUSC - Lung squamous cell carcinoma(72;0.037)			gagtgagcaattcctgtccct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	157685646	157685647	+	IGR	INS	-	G	G	rs148271340	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:157685646_157685647insG								C3orf55 (366627 upstream) : SHOX2 (128154 downstream)																							gctcaatgttttgggggggaaa	0.000													5	4	---	---	---	---	
RARRES1	5918	broad.mit.edu	37	3	158416466	158416467	+	Intron	INS	-	T	T	rs112801305		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:158416466_158416467insT	uc003fci.2	-							NM_206963	NP_996846	P49788	TIG1_HUMAN	retinoic acid receptor responder (tazarotene						negative regulation of cell proliferation	integral to membrane					0			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)		Tretinoin(DB00755)	CTGACATTTCCTTTTTTTTTTT	0.302													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	159735784	159735789	+	Intron	DEL	GAGAGA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:159735784_159735789delGAGAGA	uc003fcw.1	-						uc003fcy.1_5'Flank					Homo sapiens cDNA FLJ39842 fis, clone SPLEN2014293.																		cagcctgggtgagagagagagagaga	0.034													11	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	162805960	162805961	+	Intron	INS	-	ACAC	ACAC	rs139981940	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:162805960_162805961insACAC	uc003feg.2	+											Homo sapiens, clone IMAGE:2905387, mRNA.																		CCCTGGAacagacacacacaca	0.149													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	164222800	164222801	+	IGR	INS	-	TGTGTG	TGTGTG	rs140259804	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164222800_164222801insTGTGTG								MIR720 (163562 upstream) : SI (473886 downstream)																							ggactgtagattgtgtgtgtgt	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	165320738	165320738	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165320738delT								SLITRK3 (406269 upstream) : BCHE (169956 downstream)																							cagtgtttggttttttgtcct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	166795777	166795777	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:166795777delG								None (None upstream) : ZBBX (162304 downstream)																							ggtcgaaggtggccaggttct	0.000													4	2	---	---	---	---	
SERPINI1	5274	broad.mit.edu	37	3	167501921	167501921	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167501921delT	uc003ffa.3	+						SERPINI1_uc003ffb.3_Intron	NM_001122752	NP_001116224	Q99574	NEUS_HUMAN	neuroserpin precursor						central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1						CTAACATTGCTTTTTTTTTCT	0.413													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	167896126	167896126	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167896126delT								GOLIM4 (82709 upstream) : MIR551B (373516 downstream)																							ttcctggtagttcatattaga	0.000													4	2	---	---	---	---	
MECOM	2122	broad.mit.edu	37	3	169189152	169189152	+	Intron	DEL	A	-	-	rs147203087		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169189152delA	uc011bpj.1	-						MECOM_uc011bpk.1_Intron|MECOM_uc010hwn.2_Intron|MECOM_uc011bpl.1_Intron	NM_004991	NP_004982	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform c						apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						TTACCTCAGGAAAAAAAAAAA	0.249													2	5	---	---	---	---	
SKIL	6498	broad.mit.edu	37	3	170084476	170084477	+	Intron	INS	-	ACACAG	ACACAG	rs10683303		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170084476_170084477insACACAG	uc003fgu.2	+						SKIL_uc011bps.1_Intron|SKIL_uc003fgv.2_Intron|SKIL_uc003fgw.2_Intron	NM_005414	NP_005405	P12757	SKIL_HUMAN	SKI-like isoform 1						cell cycle arrest|negative regulation of cell differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of axonogenesis|protein heterotrimerization|protein homotrimerization|regulation of apoptosis|regulation of apoptosis|response to antibiotic|response to growth factor stimulus|skeletal muscle tissue development	cytoplasm|PML body	chromatin binding|nucleotide binding|protein complex binding|protein domain specific binding|SMAD binding|transcription corepressor activity|transcription repressor activity			ovary(2)|skin(1)	3	all_cancers(22;7.13e-23)|all_epithelial(15;9.95e-28)|all_lung(20;1.23e-16)|Lung NSC(18;5.15e-16)|Ovarian(172;0.000337)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			cacacacacacacacacagaca	0.124													4	4	---	---	---	---	
CLDN11	5010	broad.mit.edu	37	3	170532840	170532845	+	Intron	DEL	CTCTGC	-	-	rs145776631	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170532840_170532845delCTCTGC	uc011bpt.1	+							NM_005602	NP_005593	O75508	CLD11_HUMAN	claudin 11						calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			central_nervous_system(1)	1	all_cancers(22;5.62e-23)|all_epithelial(15;7.54e-28)|all_lung(20;2.51e-17)|Lung NSC(18;1.02e-16)|Ovarian(172;0.000567)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			ctctctctctctctgcctctctctct	0.078													4	3	---	---	---	---	
TNIK	23043	broad.mit.edu	37	3	171041934	171041935	+	Intron	DEL	AG	-	-	rs71999634		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171041934_171041935delAG	uc003fhh.2	-						TNIK_uc003fhi.2_Intron|TNIK_uc003fhj.2_Intron|TNIK_uc003fhk.2_Intron|TNIK_uc003fhl.2_Intron|TNIK_uc003fhm.2_Intron|TNIK_uc003fhn.2_Intron|TNIK_uc003fho.2_Intron	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1						actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			AAAATGTGAAAGAGAGGAGGGA	0.460													1	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	171202566	171202567	+	IGR	INS	-	T	T	rs144036257	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171202566_171202567insT								TNIK (24369 upstream) : PLD1 (116053 downstream)																							cacccagctaatttttttgttt	0.000													1	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	171729282	171729283	+	IGR	INS	-	A	A	rs142829606	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171729282_171729283insA								TMEM212 (152174 upstream) : FNDC3B (28135 downstream)																							AATAGATTTggccgggcacagt	0.178													2	5	---	---	---	---	
NLGN1	22871	broad.mit.edu	37	3	173885384	173885384	+	Intron	DEL	T	-	-	rs7634859		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:173885384delT	uc003fio.1	+						NLGN1_uc010hww.1_Intron|NLGN1_uc003fip.1_Intron	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1						calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			atctgcccccttttttttttt	0.000													4	2	---	---	---	---	
NAALADL2	254827	broad.mit.edu	37	3	174968043	174968046	+	Intron	DEL	TGTG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:174968043_174968046delTGTG	uc003fit.2	+						NAALADL2_uc003fiu.1_Intron|NAALADL2_uc010hwy.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)		tcactttttctgtgtgtgtgtgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	175846950	175846951	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:175846950_175846951insT								NAALADL2 (323524 upstream) : TBL1XR1 (891592 downstream)																							ttctttttttcttttttttttt	0.149													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	176402699	176402705	+	IGR	DEL	CCAAGAA	-	-	rs72404328		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176402699_176402705delCCAAGAA								NAALADL2 (879273 upstream) : TBL1XR1 (335838 downstream)																							TAAAATAAGCCCAAGAACAGGCCAGAC	0.444													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	177187746	177187746	+	IGR	DEL	A	-	-	rs66697199		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:177187746delA								TBL1XR1 (272698 upstream) : None (None downstream)																							ACTGTCTATGAAAGCTCTGGG	0.473													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	177428377	177428378	+	IGR	INS	-	AA	AA	rs10674485		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:177428377_177428378insAA								TBL1XR1 (513329 upstream) : KCNMB2 (825846 downstream)																							TACTTGGACTTAAAAAAAAAAA	0.317													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	178594017	178594017	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:178594017delA								KCNMB2 (31801 upstream) : ZMAT3 (147510 downstream)																							ATCAAGGTTTAAAAAAAAAGA	0.294													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	180465903	180465903	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180465903delT	uc003fko.2	-											Homo sapiens mRNA; cDNA DKFZp434A128 (from clone DKFZp434A128).																		GAACTATGTATTTTTTATAAG	0.453													2	18	---	---	---	---	
SOX2OT	347689	broad.mit.edu	37	3	181372257	181372257	+	Intron	DEL	T	-	-	rs36027424		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:181372257delT	uc003fkv.2	+						SOX2OT_uc003fkw.3_Intron					Homo sapiens cDNA FLJ12764 fis, clone NT2RP2001506.												0						GTAAATTTCAttttttttttt	0.124													2	6	---	---	---	---	
SOX2OT	347689	broad.mit.edu	37	3	181418975	181418976	+	Intron	INS	-	T	T	rs143474025	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:181418975_181418976insT	uc003fkv.2	+						SOX2OT_uc003fkw.3_Intron					Homo sapiens cDNA FLJ12764 fis, clone NT2RP2001506.												0						tttttcttttctttttttttAA	0.332													1	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	182004394	182004395	+	IGR	INS	-	GT	GT	rs71914776		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:182004394_182004395insGT								SOX2OT (545391 upstream) : ATP11B (506896 downstream)																							gtgtgtgtggagtgtgtgtgtg	0.000													15	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	182383607	182383610	+	IGR	DEL	TGTT	-	-	rs10532146		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:182383607_182383610delTGTT								SOX2OT (924604 upstream) : ATP11B (127681 downstream)																							CATTTGtgtatgtttgtttgtttg	0.176													8	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	182895296	182895297	+	IGR	INS	-	CAA	CAA	rs144788358	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:182895296_182895297insCAA								LAMP3 (14629 upstream) : MCF2L2 (534 downstream)																							agactccgtctcaacaacaaca	0.000													26	20	---	---	---	---	
MCF2L2	23101	broad.mit.edu	37	3	183016554	183016555	+	Intron	DEL	CA	-	-	rs3830591		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183016554_183016555delCA	uc003fli.1	-						MCF2L2_uc003flj.1_Intron|MCF2L2_uc011bqr.1_Intron|MCF2L2_uc003flp.1_3'UTR	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor						regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			Aacacacatgcacacacacaca	0.282													13	12	---	---	---	---	
MCF2L2	23101	broad.mit.edu	37	3	183125897	183125897	+	Intron	DEL	C	-	-	rs113720826		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183125897delC	uc003fli.1	-						MCF2L2_uc003flj.1_Intron	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor						regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			ATTACCTTGTCCCCCCCAATC	0.458													8	32	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	183310823	183310823	+	IGR	DEL	C	-	-	rs35260167		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183310823delC								KLHL6 (37324 upstream) : KLHL24 (42588 downstream)																							tggtgctgttcttgtcacagt	0.000													9	15	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	183333182	183333183	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183333182_183333183insA								KLHL6 (59683 upstream) : KLHL24 (20228 downstream)																							actaaagatacaaaaaaaaaaa	0.000													4	2	---	---	---	---	
PSMD2	5708	broad.mit.edu	37	3	184019125	184019126	+	Intron	DEL	AA	-	-	rs112455702		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184019125_184019126delAA	uc003fnn.1	+						PSMD2_uc011brj.1_Intron|PSMD2_uc011brk.1_Intron	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	actgagtctcaaaaaaaaaaaa	0.000													6	3	---	---	---	---	
FAM131A	131408	broad.mit.edu	37	3	184063731	184063731	+	3'UTR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184063731delA	uc003fog.2	+	3					FAM131A_uc003fob.1_3'UTR|FAM131A_uc003foc.2_3'UTR|FAM131A_uc003foe.2_3'UTR	NM_144635	NP_653236	Q6UXB0	F131A_HUMAN	hypothetical protein LOC131408 precursor							extracellular region				breast(1)	1	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CTTCTTGGGGAGGAAAGAAGG	0.577													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	184137630	184137631	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184137630_184137631insA								CHRD (30011 upstream) : EPHB3 (141956 downstream)																							cccatctttagaaaaaaaaaaa	0.124													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	184504301	184504302	+	IGR	INS	-	AG	AG	rs138241640	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184504301_184504302insAG								MAGEF1 (74465 upstream) : VPS8 (25629 downstream)																							TGTAAGAAACCAGAGAGAGAGA	0.450													4	3	---	---	---	---	
VPS8	23355	broad.mit.edu	37	3	184684761	184684762	+	Intron	INS	-	T	T	rs145029067		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184684761_184684762insT	uc003fpb.1	+						VPS8_uc010hyd.1_Intron|VPS8_uc010hye.1_Intron	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b								zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TGTTGGTTATCttttttttttt	0.168													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	186155807	186155808	+	IGR	INS	-	T	T	rs10677366		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186155807_186155808insT								DGKG (75784 upstream) : CRYGS (100425 downstream)																							atgtctggctattttttttttt	0.000													4	2	---	---	---	---	
ST6GAL1	6480	broad.mit.edu	37	3	186646836	186646837	+	5'Flank	DEL	TT	-	-	rs77445287		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186646836_186646837delTT	uc003frb.2	+						ST6GAL1_uc003frc.2_5'Flank	NM_173216	NP_775323	P15907	SIAT1_HUMAN	ST6 beta-galactosamide						humoral immune response|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			central_nervous_system(1)	1	all_cancers(143;2.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;8.53e-19)	GBM - Glioblastoma multiforme(93;0.0939)		aatagcctccTTTTTTTTTTTC	0.153													4	2	---	---	---	---	
TPRG1	285386	broad.mit.edu	37	3	189013703	189013703	+	Intron	DEL	A	-	-	rs150226468		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:189013703delA	uc003frv.1	+						TPRG1_uc003frw.1_Intron	NM_198485	NP_940887	Q6ZUI0	TPRG1_HUMAN	tumor protein p63 regulated 1												0	all_cancers(143;6.12e-12)|all_hematologic(3;0.0359)|Ovarian(172;0.0925)	all_lung(153;8.23e-09)|Lung NSC(153;3.55e-06)|all_neural(597;0.0019)|Myeloproliferative disorder(1037;0.0255)	Lung(62;6.93e-06)	GBM - Glioblastoma multiforme(93;4.77e-14)		ATGATGCtttaaaaaaaaaaa	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	190827769	190827769	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190827769delG								SNAR-I (231930 upstream) : OSTN (102553 downstream)																							TATTACTGGAGGATAGAATAA	0.353													1	5	---	---	---	---	
UTS2D	257313	broad.mit.edu	37	3	191035357	191035365	+	Intron	DEL	TTGTTGTTG	-	-	rs144639747		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:191035357_191035365delTTGTTGTTG	uc003fsu.2	-							NM_198152	NP_937795	Q765I0	UTS2B_HUMAN	urotensin 2 domain containing precursor							extracellular region	hormone activity				0	all_cancers(143;1.77e-09)|Ovarian(172;0.103)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000214)		AGGATAGTCTttgttgttgttgttgttgt	0.024													4	3	---	---	---	---	
C3orf59	151963	broad.mit.edu	37	3	192619343	192619344	+	Intron	INS	-	C	C	rs140836559	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:192619343_192619344insC	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)		CACCCCAACAACAATTGTATCT	0.411													1	5	---	---	---	---	
LRRC15	131578	broad.mit.edu	37	3	194082868	194082869	+	Intron	DEL	TG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194082868_194082869delTG	uc003ftu.2	-						LRRC15_uc003ftt.2_Intron	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b							integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		tgtgtgtgtatgtgtgtgtgtg	0.262													4	2	---	---	---	---	
SDHAP2	727956	broad.mit.edu	37	3	195392705	195392705	+	Intron	DEL	C	-	-	rs59802848		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195392705delC	uc003fuw.2	+						SDHAP2_uc003fut.3_Intron|SDHAP2_uc003fuu.3_Intron|SDHAP2_uc011btb.1_Intron|SDHAP2_uc011btc.1_Intron|SDHAP2_uc003fuv.2_Intron					SubName: Full=cDNA FLJ16373 fis, clone THYMU3000269, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial (EC 1.3.5.1);												0						AAATGTGTCACCAACATAGGA	0.567													3	3	---	---	---	---	
PAK2	5062	broad.mit.edu	37	3	196513697	196513698	+	Intron	INS	-	T	T	rs112180328		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196513697_196513698insT	uc003fwy.3	+							NM_002577	NP_002568	Q13177	PAK2_HUMAN	p21-activated kinase 2						axon guidance|cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of apoptosis|regulation of defense response to virus by virus|regulation of growth|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|nucleus|perinuclear region of cytoplasm|plasma membrane	ATP binding|identical protein binding|protein kinase binding|protein serine/threonine kinase activity|protein tyrosine kinase activator activity			ovary(1)|lung(1)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00405)		atcttacaatcttttttttttt	0.000													1	5	---	---	---	---	
SENP5	205564	broad.mit.edu	37	3	196640439	196640440	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196640439_196640440insA	uc003fwz.3	+						SENP5_uc011bty.1_Intron	NM_152699	NP_689912	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5						cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		gactccatctcaaaaaaaaaaa	0.035													3	3	---	---	---	---	
DLG1	1739	broad.mit.edu	37	3	196781692	196781693	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196781692_196781693insT	uc003fxo.3	-						DLG1_uc011bub.1_Intron|DLG1_uc011buc.1_Intron|DLG1_uc011bud.1_Intron|DLG1_uc003fxn.3_Intron|DLG1_uc011bue.1_Intron|DLG1_uc010ial.2_Intron	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1						actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		atttttgtttattttttttttt	0.000													4	2	---	---	---	---	
ZNF595	152687	broad.mit.edu	37	4	60459	60459	+	Intron	DEL	C	-	-	rs58498692		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:60459delC	uc003fzv.1	+						ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc010iay.1_Intron|ZNF595_uc011bus.1_Intron|ZNF595_uc011but.1_Intron	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595						regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		GTTTAGAAATCTTAGGAACAC	0.259													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	3574770	3574771	+	IGR	INS	-	G	G	rs150766433		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3574770_3574771insG								LRPAP1 (40546 upstream) : ADRA2C (193304 downstream)																							gcatgtgaggtgggggcttgcg	0.233													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	3585779	3585780	+	Intron	INS	-	AT	AT	rs149107570		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3585779_3585780insAT	uc003ghj.1	+						uc003ghk.1_Intron					Homo sapiens cDNA FLJ35424 fis, clone SMINT2001461.																		cacacacacacacacacccatg	0.163													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	26216321	26216322	+	IGR	INS	-	GGAA	GGAA	rs143452566	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:26216321_26216322insGGAA								C4orf52 (284821 upstream) : RBPJ (105010 downstream)																							ggaggaaggatggaaggaagga	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	37203453	37203454	+	IGR	DEL	AC	-	-	rs151123515		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:37203453_37203454delAC								MIR1255B-1 (775403 upstream) : KIAA1239 (43236 downstream)																							acacacaaagacacacacacac	0.020													4	2	---	---	---	---	
SLAIN2	57606	broad.mit.edu	37	4	48410187	48410188	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48410187_48410188insA	uc003gya.3	+							NM_020846	NP_065897	Q9P270	SLAI2_HUMAN	SLAIN motif family, member 2							centrosome					0						gactacatcagaaaaaataaaa	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	49274524	49274525	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49274524_49274525insA								CWH43 (210431 upstream) : None (None downstream)																							cagcaagattgaaatggtaatt	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	78056591	78056591	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:78056591delT								CCNI (59466 upstream) : CCNG2 (21766 downstream)																							CGCGCGCGCCtttttttttga	0.224													4	2	---	---	---	---	
C4orf22	255119	broad.mit.edu	37	4	81463896	81463896	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:81463896delT	uc003hmf.2	+						C4orf22_uc010ijp.2_Intron	NM_152770	NP_689983	Q6V702	CD022_HUMAN	hypothetical protein LOC255119											skin(2)	2						attgccatagttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	94907396	94907396	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:94907396delA								ATOH1 (156254 upstream) : SMARCAD1 (221363 downstream)																							TGTTATACATAAAGGAAAGGG	0.373													4	2	---	---	---	---	
ANK2	287	broad.mit.edu	37	4	114286430	114286430	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114286430delT	uc003ibe.3	+						ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Intron	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1						axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		ACCTACTGTCTTTTTTTTTTT	0.174													5	3	---	---	---	---	
SYNPO2	171024	broad.mit.edu	37	4	119862060	119862060	+	Intron	DEL	C	-	-	rs11294926		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:119862060delC	uc003icm.3	+						SYNPO2_uc010ina.2_Intron|SYNPO2_uc010inb.2_Intron|SYNPO2_uc011cgh.1_Intron	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b							nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						tggtgctcctccgggttctgc	0.035													2	5	---	---	---	---	
SYNPO2	171024	broad.mit.edu	37	4	119933513	119933513	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:119933513delT	uc003icm.3	+						SYNPO2_uc010ina.2_Intron|SYNPO2_uc010inb.2_Intron|SYNPO2_uc011cgh.1_Intron	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b							nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						ACATGGTTCCTTTTTTTTCCC	0.259													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	132161875	132161876	+	IGR	INS	-	TG	TG	rs61443074		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:132161875_132161876insTG								None (None upstream) : None (None downstream)																							gtgtgtgtgtatgtgtgtgtgt	0.297													4	2	---	---	---	---	
DDX60L	91351	broad.mit.edu	37	4	169337603	169337604	+	Intron	INS	-	TA	TA	rs142137108	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169337603_169337604insTA	uc003irq.3	-						DDX60L_uc003irr.1_Intron|DDX60L_uc003irs.1_Intron	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like								ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		gacatggtaatgtacacctgtg	0.144													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190600300	190600300	+	IGR	DEL	A	-	-	rs77168839		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190600300delA								None (None upstream) : FRG1 (261674 downstream)																							cccacatcctactcattggct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190895961	190895961	+	IGR	DEL	T	-	-	rs67074602		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190895961delT								FRG1 (11603 upstream) : TUBB4Q (7718 downstream)																							AATAAATGAATACTTTTGTAT	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190898573	190898574	+	IGR	INS	-	AA	AA	rs80185318		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190898573_190898574insAA								FRG1 (14215 upstream) : TUBB4Q (5105 downstream)																							ccaatatttgcaaaaatagaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	41442	41443	+	IGR	DEL	CA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41442_41443delCA								None (None upstream) : PLEKHG4B (98930 downstream)																							cgcacgcatgcacacacacaca	0.208													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	97791	97792	+	IGR	INS	-	C	C	rs144742988	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:97791_97792insC								None (None upstream) : PLEKHG4B (42581 downstream)																							atagaccacagttgtccattca	0.000													2	5	---	---	---	---	
AHRR	57491	broad.mit.edu	37	5	325748	325748	+	Intron	DEL	T	-	-	rs7736482	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:325748delT	uc003jav.2	+						AHRR_uc003jaw.2_Intron|AHRR_uc010isy.2_Intron|AHRR_uc010isz.2_Intron	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			CGTCCCACCCTCCGCACCACC	0.557													4	2	---	---	---	---	
AHRR	57491	broad.mit.edu	37	5	418773	418773	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:418773delC	uc003jav.2	+						AHRR_uc003jaw.2_Intron|AHRR_uc010isy.2_Intron|AHRR_uc010isz.2_Intron|AHRR_uc003jax.2_5'Flank|AHRR_uc003jay.2_5'Flank	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			CTCAGGGTTGCCTGTGGAAAC	0.622													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	746104	746104	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:746104delC								TPPP (52594 upstream) : ZDHHC11 (49616 downstream)																							GCCCACAGGACAGCTCAGCAG	0.602													7	4	---	---	---	---	
ZDHHC11	79844	broad.mit.edu	37	5	849371	849371	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:849371delT	uc011cma.1	-						ZDHHC11_uc003jbj.2_5'Flank	NM_024786	NP_079062	Q9H8X9	ZDH11_HUMAN	zinc finger, DHHC-type containing 11							integral to membrane	acyltransferase activity|zinc ion binding			skin(1)|pancreas(1)	2			Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)			ACAGGGCAAATCCCCCACAGA	0.617													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	979320	979321	+	IGR	DEL	CA	-	-	rs71930678		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:979320_979321delCA								TRIP13 (61162 upstream) : NKD2 (29847 downstream)																							gagacacacgcacacacacaca	0.124													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	983725	983726	+	IGR	DEL	GT	-	-	rs35591838		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:983725_983726delGT								TRIP13 (65567 upstream) : NKD2 (25442 downstream)																							tgtctgtgtggtgtgtgtgtgt	0.208													4	2	---	---	---	---	
SLC12A7	10723	broad.mit.edu	37	5	1064469	1064470	+	Intron	INS	-	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1064469_1064470insG	uc003jbu.2	-							NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride						potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	CGGCGAGGCGAGGGGGGTCCCC	0.683													3	5	---	---	---	---	
LPCAT1	79888	broad.mit.edu	37	5	1502695	1502695	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1502695delC	uc003jcm.2	-							NM_024830	NP_079106	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1						phospholipid biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)		GCTGCGGGATCCCAGGCAGCC	0.701													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	1731708	1731708	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1731708delC								LOC728613 (97588 upstream) : MRPL36 (66792 downstream)																							CGCATCCCGTCCTGTCAGCCC	0.458													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	2262880	2262880	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:2262880delC								IRX4 (380000 upstream) : IRX2 (483401 downstream)																							TGGGGCCACTCCCAGGACCTG	0.602													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	2539933	2539936	+	IGR	DEL	TCTA	-	-	rs3066570		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:2539933_2539936delTCTA								IRX4 (657053 upstream) : IRX2 (206345 downstream)																							CATCCATTCCtctatctatctatc	0.186													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	3006187	3006188	+	IGR	INS	-	A	A	rs138163965	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3006187_3006188insA								C5orf38 (250675 upstream) : IRX1 (589980 downstream)																							catctcaaaacaaaaaaaaaag	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	3945629	3945629	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3945629delA								IRX1 (344113 upstream) : None (None downstream)																							ctcaaaaaagaaaaaaaaaaa	0.060													4	2	---	---	---	---	
ADAMTS16	170690	broad.mit.edu	37	5	5236414	5236415	+	Intron	INS	-	T	T	rs141754554	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5236414_5236415insT	uc003jdl.2	+						ADAMTS16_uc003jdk.1_Intron|ADAMTS16_uc010itk.1_Intron	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TGTCCCTCCCCTTTTTTTTTTA	0.307													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	5801054	5801055	+	IGR	INS	-	G	G	rs56293417	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5801054_5801055insG								KIAA0947 (310717 upstream) : FLJ33360 (509499 downstream)																							AGTCCTGGCCCGGGGGCACTCC	0.525													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	6993478	6993478	+	IGR	DEL	T	-	-	rs67073002		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:6993478delT								PAPD7 (236317 upstream) : ADCY2 (402865 downstream)																							gcccggctaattttttttgtg	0.025													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	8151457	8151457	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:8151457delC								MTRR (250224 upstream) : SEMA5A (883681 downstream)																							CCTCTGGCCTCCCCTGCTGTC	0.498													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	8576356	8576357	+	IGR	INS	-	A	A	rs148388210	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:8576356_8576357insA								MTRR (675123 upstream) : SEMA5A (458781 downstream)																							CGGCAGTGATGAAAAAAACACC	0.465													4	3	---	---	---	---	
CCT5	22948	broad.mit.edu	37	5	10260656	10260657	+	Intron	INS	-	T	T	rs141061821	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:10260656_10260657insT	uc003jeq.2	+						CCT5_uc011cmq.1_Intron|CCT5_uc003jer.2_Intron|CCT5_uc010its.2_Intron|CCT5_uc011cmr.1_Intron|CCT5_uc011cms.1_Intron|CCT5_uc011cmt.1_Intron	NM_012073	NP_036205	P48643	TCPE_HUMAN	chaperonin containing TCP1, subunit 5 (epsilon)						'de novo' posttranslational protein folding|response to virus	microtubule organizing center|nucleolus	ATP binding|unfolded protein binding			ovary(2)	2						AGGGTTCAGCAGAATTACTGCT	0.406													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	15082014	15082014	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:15082014delC								ANKH (210127 upstream) : FBXL7 (418291 downstream)																							gggtgtcattcccctcatcta	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	16645846	16645846	+	IGR	DEL	A	-	-	rs70940389		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16645846delA								FAM134B (28728 upstream) : MYO10 (16171 downstream)																							acaggaaggcagaggagaatc	0.075													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	16954757	16954758	+	IGR	INS	-	AAAAAAAA	AAAAAAAA	rs140311140	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16954757_16954758insAAAAAAAA								MYO10 (18372 upstream) : LOC285696 (175379 downstream)																							gactctgtctcaaaaaaaaaga	0.000													5	3	---	---	---	---	
CDH18	1016	broad.mit.edu	37	5	19557347	19557347	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:19557347delA	uc003jgc.2	-						CDH18_uc003jgd.2_Intron|CDH18_uc011cnm.1_Intron	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					gaaataaaccaaggtattcag	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	20503111	20503112	+	IGR	INS	-	A	A	rs141776842	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:20503111_20503112insA								CDH18 (514804 upstream) : GUSBP1 (838830 downstream)																							CCTGAACTTAGAAAAAAAGGGG	0.322													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	20552287	20552288	+	IGR	DEL	AA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:20552287_20552288delAA								CDH18 (563980 upstream) : GUSBP1 (789654 downstream)																							TGGTTTCATTAAAAAAAAAAAG	0.188													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	27460207	27460208	+	IGR	INS	-	GAGA	GAGA	rs137854999	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:27460207_27460208insGAGA								CDH9 (421518 upstream) : None (None downstream)																							tgtgtgtgtgtgtgtgtatgta	0.188													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	28210757	28210758	+	IGR	INS	-	A	A	rs139921175	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:28210757_28210758insA								None (None upstream) : None (None downstream)																							GTATGAACAAGAAAAAAAAAAT	0.168													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	29357406	29357406	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:29357406delT								None (None upstream) : None (None downstream)																							GAAGACTGGATTTTACTGCCT	0.403													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	29431840	29431841	+	IGR	INS	-	CTTGC	CTTGC	rs142822429	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:29431840_29431841insCTTGC								None (None upstream) : None (None downstream)																							agaataatgagttatgaaattc	0.054													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	29656004	29656007	+	IGR	DEL	TGTG	-	-	rs3086268	byFrequency	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:29656004_29656007delTGTG								None (None upstream) : None (None downstream)																							GAGATAtgtctgtgtgtgtgtgtg	0.304													3	3	---	---	---	---	
MTMR12	54545	broad.mit.edu	37	5	32265078	32265078	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:32265078delA	uc003jhq.2	-						MTMR12_uc010iuk.2_Intron|MTMR12_uc010iul.2_Intron	NM_001040446	NP_001035536	Q9C0I1	MTMRC_HUMAN	myotubularin related protein 12							cytoplasm	phosphatase activity			ovary(1)	1						AAACCCCACCAAAAAAAAAAA	0.294													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	33311002	33311002	+	IGR	DEL	T	-	-	rs34719751		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33311002delT								C5orf23 (519183 upstream) : TARS (129800 downstream)																							AAAGAAAAGGttttttttttt	0.164													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	34296226	34296226	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34296226delA								C1QTNF3 (252909 upstream) : RAI14 (360207 downstream)																							tctcaaatggaaatgaggaac	0.000													1	5	---	---	---	---	
PRLR	5618	broad.mit.edu	37	5	35094391	35094392	+	Intron	INS	-	GT	GT	rs150455824	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:35094391_35094392insGT	uc003jjm.2	-							NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor						activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	gcatttcttgagtgtgtgtgtg	0.000													4	3	---	---	---	---	
NIPBL	25836	broad.mit.edu	37	5	36968802	36968802	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36968802delA	uc003jkl.3	+						NIPBL_uc003jkk.3_Intron|NIPBL_uc003jkm.1_Intron	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A						brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			atctgtatggaaaaaaaagga	0.000													4	2	---	---	---	---	
C5orf42	65250	broad.mit.edu	37	5	37236825	37236826	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37236825_37236826insA	uc011cpa.1	-							NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250											ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			actcaacaagcaaaaaaaaaaa	0.000													4	3	---	---	---	---	
FYB	2533	broad.mit.edu	37	5	39164255	39164266	+	Intron	DEL	GCTCCAAATTCA	-	-	rs6148996		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39164255_39164266delGCTCCAAATTCA	uc003jls.2	-						FYB_uc003jlt.2_Intron|FYB_uc003jlu.2_Intron|FYB_uc011cpl.1_Intron	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2						cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			TAAAGCATGTGCTCcaaattcagctgtctgtg	0.217													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	41584557	41584557	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41584557delC								PLCXD3 (73827 upstream) : OXCT1 (145611 downstream)																							tcattatctgcccagcaccca	0.139													6	3	---	---	---	---	
CCL28	56477	broad.mit.edu	37	5	43389516	43389517	+	Intron	INS	-	C	C	rs141922573	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:43389516_43389517insC	uc003jnu.2	-						CCL28_uc003jns.2_Intron|CCL28_uc003jnt.2_Intron|CCL28_uc010ivn.2_Intron	NM_148672	NP_683513	Q9NRJ3	CCL28_HUMAN	chemokine (C-C motif) ligand 28 precursor						chemotaxis|immune response	extracellular space	chemokine activity			ovary(1)|kidney(1)	2						ATTGGATTTATCACGTATCCAC	0.381													1	6	---	---	---	---	
RAB3C	115827	broad.mit.edu	37	5	58106218	58106219	+	Intron	INS	-	TGTG	TGTG	rs145851437		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:58106218_58106219insTGTG	uc003jrp.2	+							NM_138453	NP_612462	Q96E17	RAB3C_HUMAN	RAB3C, member RAS oncogene family						protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)|central_nervous_system(1)	2		all_cancers(5;9.93e-10)|all_epithelial(5;1.49e-10)|all_lung(5;8.97e-05)|Lung NSC(5;0.000139)|Prostate(74;0.0664)		OV - Ovarian serous cystadenocarcinoma(10;1.8e-34)		ctctctgtgtgtgtgtgtgtgt	0.218													3	3	---	---	---	---	
TNFAIP8	25816	broad.mit.edu	37	5	118722673	118722674	+	Intron	INS	-	CTCT	CTCT	rs142571847	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118722673_118722674insCTCT	uc003ksh.2	+						TNFAIP8_uc003ksf.1_Intron|TNFAIP8_uc003ksg.2_Intron|TNFAIP8_uc011cwf.1_Intron|TNFAIP8_uc003ksi.2_Intron	NM_014350	NP_055165	O95379	TFIP8_HUMAN	tumor necrosis factor, alpha-induced protein 8						anti-apoptosis|apoptosis|negative regulation of anti-apoptosis	cytoplasm	caspase inhibitor activity|protein binding			ovary(1)	1		all_cancers(142;0.0317)|Prostate(80;0.111)|Breast(839;0.231)		Epithelial(69;4.63e-83)|OV - Ovarian serous cystadenocarcinoma(64;1.39e-82)|all cancers(49;4.88e-75)|GBM - Glioblastoma multiforme(465;0.00338)|BRCA - Breast invasive adenocarcinoma(61;0.0148)|COAD - Colon adenocarcinoma(49;0.0829)		tccctccctccctctctttcct	0.317													3	3	---	---	---	---	
HSPA4	3308	broad.mit.edu	37	5	132395206	132395206	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132395206delG	uc003kyj.2	+							NM_002154	NP_002145	P34932	HSP74_HUMAN	heat shock 70kDa protein 4						cellular chaperone-mediated protein complex assembly|protein import into mitochondrial outer membrane|response to unfolded protein	cytoplasm|nucleus	ATP binding			lung(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ttgggaggctgaggtaggagg	0.000													4	2	---	---	---	---	
KLHL3	26249	broad.mit.edu	37	5	137029930	137029930	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137029930delC	uc010jek.2	-						KLHL3_uc003lbr.3_Intron|KLHL3_uc011cyd.1_Intron|MYOT_uc011cye.1_Intron|KLHL3_uc010jem.1_Intron|KLHL3_uc010jen.1_Intron|KLHL3_uc003lbs.1_5'Flank	NM_017415	NP_059111	Q9UH77	KLHL3_HUMAN	kelch-like 3							cytoplasm|cytoskeleton	actin binding|structural molecule activity				0		all_hematologic(541;3.67e-07)|Breast(839;7.61e-05)|Prostate(281;0.000825)|Ovarian(839;0.0481)|all_lung(232;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	GBM - Glioblastoma multiforme(465;0.0223)		AAAACGTGCTCCTTTTCCCTT	0.458													4	2	---	---	---	---	
BRD8	10902	broad.mit.edu	37	5	137396046	137396046	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137396046delG	uc003lcc.1	-							NM_001164326		Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 4						cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			ttatagatctgggaattcagg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	140106599	140106599	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140106599delC								VTRNA1-3 (768 upstream) : PCDHA1 (59277 downstream)																							gcgtgagccactgcacccggc	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	146916457	146916457	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146916457delT								DPYSL3 (27033 upstream) : JAKMIP2 (54249 downstream)																							TTTTTATCCCTTAAATCCAAG	0.323													4	2	---	---	---	---	
GALNT10	55568	broad.mit.edu	37	5	153657545	153657545	+	Intron	DEL	A	-	-	rs5872368		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:153657545delA	uc003lvh.2	+						GALNT10_uc003lvg.1_Intron|GALNT10_uc010jic.2_Intron	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			ACCTAAGGCCAAAAAAATAGT	0.294													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	154949782	154949782	+	IGR	DEL	T	-	-	rs138289340		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154949782delT								KIF4B (552097 upstream) : SGCD (185281 downstream)																							tctttttttcttttttttttt	0.000													0	6	---	---	---	---	
DOCK2	1794	broad.mit.edu	37	5	169157314	169157314	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169157314delG	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)			ATGGCTGGATGGGAGAAGGAG	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	169593492	169593492	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169593492delG								FOXI1 (56764 upstream) : C5orf58 (66458 downstream)																							GGCAGTGCAAGGGGAAGGGAA	0.572													4	2	---	---	---	---	
KCNMB1	3779	broad.mit.edu	37	5	169809945	169809948	+	Intron	DEL	AAGG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169809945_169809948delAAGG	uc003maq.1	-						KCNIP1_uc003map.2_Intron|KCNMB1_uc003mar.2_3'UTR	NM_004137	NP_004128	Q16558	KCMB1_HUMAN	potassium large conductance calcium-activated						platelet activation|synaptic transmission		calcium-activated potassium channel activity|potassium channel regulator activity			ovary(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0165)|all_lung(126;0.026)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.175)		agaaggaaacaaggaaggaaggaa	0.098													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	179367235	179367235	+	IGR	DEL	T	-	-	rs71817835		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179367235delT								TBC1D9B (32379 upstream) : RNF130 (15239 downstream)																							cttttttttcttttttttttt	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	180319041	180319041	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:180319041delT								ZFP62 (30756 upstream) : BTNL8 (7036 downstream)																							aaaaagcaggtgttgcaatcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	1134360	1134361	+	IGR	INS	-	T	T	rs12181206		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:1134360_1134361insT								LOC285768 (32793 upstream) : FOXQ1 (178314 downstream)																							tttttgttgtgttttttttttt	0.000													4	2	---	---	---	---	
GMDS	2762	broad.mit.edu	37	6	1659444	1659445	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:1659444_1659445insT	uc003mtq.2	-							NM_001500	NP_001491	O60547	GMDS_HUMAN	GDP-mannose 4,6-dehydratase						'de novo' GDP-L-fucose biosynthetic process|GDP-mannose metabolic process|leukocyte cell-cell adhesion		coenzyme binding|GDP-mannose 4,6-dehydratase activity			central_nervous_system(1)	1	Ovarian(93;0.0733)	all_cancers(2;7.64e-19)|all_epithelial(2;3.05e-16)|Colorectal(2;0.00414)|all_hematologic(90;0.00997)|all_lung(73;0.0141)|Lung NSC(90;0.0802)		Epithelial(2;7.61e-06)|all cancers(2;0.000111)|STAD - Stomach adenocarcinoma(2;0.000231)|Colorectal(2;0.00445)|COAD - Colon adenocarcinoma(2;0.0125)|OV - Ovarian serous cystadenocarcinoma(45;0.0563)		GTGGCAGGGCCTTTTTTTTTtt	0.317													4	2	---	---	---	---	
GMDS	2762	broad.mit.edu	37	6	1746462	1746463	+	Intron	DEL	TT	-	-	rs34777755		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:1746462_1746463delTT	uc003mtq.2	-							NM_001500	NP_001491	O60547	GMDS_HUMAN	GDP-mannose 4,6-dehydratase						'de novo' GDP-L-fucose biosynthetic process|GDP-mannose metabolic process|leukocyte cell-cell adhesion		coenzyme binding|GDP-mannose 4,6-dehydratase activity			central_nervous_system(1)	1	Ovarian(93;0.0733)	all_cancers(2;7.64e-19)|all_epithelial(2;3.05e-16)|Colorectal(2;0.00414)|all_hematologic(90;0.00997)|all_lung(73;0.0141)|Lung NSC(90;0.0802)		Epithelial(2;7.61e-06)|all cancers(2;0.000111)|STAD - Stomach adenocarcinoma(2;0.000231)|Colorectal(2;0.00445)|COAD - Colon adenocarcinoma(2;0.0125)|OV - Ovarian serous cystadenocarcinoma(45;0.0563)		GTCTTCTCTCTTTGTCTCTCAA	0.441													4	2	---	---	---	---	
GMDS	2762	broad.mit.edu	37	6	1806673	1806674	+	Intron	INS	-	AC	AC	rs141914110	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:1806673_1806674insAC	uc003mtq.2	-							NM_001500	NP_001491	O60547	GMDS_HUMAN	GDP-mannose 4,6-dehydratase						'de novo' GDP-L-fucose biosynthetic process|GDP-mannose metabolic process|leukocyte cell-cell adhesion		coenzyme binding|GDP-mannose 4,6-dehydratase activity			central_nervous_system(1)	1	Ovarian(93;0.0733)	all_cancers(2;7.64e-19)|all_epithelial(2;3.05e-16)|Colorectal(2;0.00414)|all_hematologic(90;0.00997)|all_lung(73;0.0141)|Lung NSC(90;0.0802)		Epithelial(2;7.61e-06)|all cancers(2;0.000111)|STAD - Stomach adenocarcinoma(2;0.000231)|Colorectal(2;0.00445)|COAD - Colon adenocarcinoma(2;0.0125)|OV - Ovarian serous cystadenocarcinoma(45;0.0563)		AGCACATGGGAacacacacaca	0.292													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	2508605	2508606	+	IGR	INS	-	T	T	rs111832855		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:2508605_2508606insT								GMDS (262759 upstream) : C6orf195 (114366 downstream)																							GAGTGGGGAACTTTTTTTTTTT	0.455													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	5794174	5794177	+	IGR	DEL	CAAA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:5794174_5794177delCAAA								FARS2 (22358 upstream) : NRN1 (204058 downstream)																							tgaactctgtcaaacaaacaaaca	0.172													4	5	---	---	---	---	
LOC285780	285780	broad.mit.edu	37	6	6450093	6450094	+	Intron	INS	-	CA	CA	rs142354868	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6450093_6450094insCA	uc003mww.3	-						LOC285780_uc003mwx.2_Intron	NR_026970				Homo sapiens cDNA FLJ33708 fis, clone BRAWH2007862.												0						cacacacacaccacacacacac	0.025													4	2	---	---	---	---	
PHACTR1	221692	broad.mit.edu	37	6	12922011	12922012	+	Intron	DEL	AC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12922011_12922012delAC	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)			agggagagaaacagggagggag	0.035													4	2	---	---	---	---	
PHACTR1	221692	broad.mit.edu	37	6	13010367	13010367	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13010367delT	uc010jpc.2	+						PHACTR1_uc011dir.1_Intron|PHACTR1_uc003nag.1_Intron|PHACTR1_uc003nah.1_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)			TTCCTATTAAttttttttttg	0.204													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	18021418	18021419	+	IGR	INS	-	T	T	rs137894357	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18021418_18021419insT								KIF13A (33619 upstream) : NHLRC1 (99299 downstream)																							aaaccTGATTGTGGccgttggg	0.020													3	3	---	---	---	---	
TDP2	51567	broad.mit.edu	37	6	24663550	24663550	+	Intron	DEL	C	-	-	rs17249582		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24663550delC	uc003nej.2	-						TDP2_uc003nei.2_Intron|TDP2_uc010jpu.1_Intron	NM_016614	NP_057698	O95551	TYDP2_HUMAN	TRAF and TNF receptor-associated protein						cell surface receptor linked signaling pathway|double-strand break repair	PML body	5'-tyrosyl-DNA phosphodiesterase activity|magnesium ion binding|nuclease activity|protein binding|transcription corepressor activity			ovary(1)|lung(1)	2						atattactatccccactgcac	0.000								Direct_reversal_of_damage|Editing_and_processing_nucleases					2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	27262295	27262296	+	IGR	DEL	TG	-	-	rs138532205		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27262295_27262296delTG								PRSS16 (38046 upstream) : POM121L2 (14546 downstream)																							AAACCGATTCtgtgtgtgtgtg	0.337													3	4	---	---	---	---	
GABBR1	2550	broad.mit.edu	37	6	29566798	29566798	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29566798delC	uc003nmp.3	-							NM_021903	NP_068703	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1						gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	TCACAGCTGGCCCCCAAGCAT	0.512													4	2	---	---	---	---	
HLA-H	3136	broad.mit.edu	37	6	29857106	29857106	+	3'UTR	DEL	C	-	-	rs70987606		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29857106delC	uc010jro.2	+	3					HLA-G_uc011dmb.1_Intron|HLA-H_uc003nod.2_RNA					SubName: Full=cDNA FLJ52667, highly similar to HLA class I histocompatibility antigen, alpha chain H;												0						TCCCGTCAGACCCCCCCCAAG	0.577													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	30723937	30723938	+	IGR	INS	-	T	T	rs145259030	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30723937_30723938insT								IER3 (11610 upstream) : DDR1 (126756 downstream)																							GGCACTGTGTGTTtttttttgt	0.277													4	2	---	---	---	---	
HLA-DRB5	3127	broad.mit.edu	37	6	32551534	32551535	+	Intron	INS	-	C	C	rs145506854	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32551534_32551535insC	uc003obk.3	-						HLA-DRB1_uc011dqa.1_Intron|HLA-DRB6_uc003obo.1_Intron|HLA-DRB1_uc003obp.3_Intron|HLA-DRB1_uc011dqb.1_5'Flank|HLA-DRB1_uc011dqc.1_Intron	NM_002125	NP_002116	Q30154	DRB5_HUMAN	major histocompatibility complex, class II, DR						antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|immune response	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						ATCTCTAAGGACCGAGATAATC	0.554													4	3	---	---	---	---	
FKBP5	2289	broad.mit.edu	37	6	35558078	35558078	+	Intron	DEL	A	-	-	rs113022119		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35558078delA	uc011dte.1	-						FKBP5_uc003okx.2_Intron|FKBP5_uc011dtf.1_Intron|FKBP5_uc003oky.2_Intron|FKBP5_uc003okz.2_Intron	NM_001145776	NP_001139248	Q13451	FKBP5_HUMAN	FK506 binding protein 5 isoform 1						protein folding	cytoplasm|membrane|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1						accctatctcaaaaaaaaaaa	0.209													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	35757686	35757686	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35757686delT								C6orf127 (1846 upstream) : CLPS (5074 downstream)																							aaaaaaTTAATTTGAGGAAAT	0.035													4	2	---	---	---	---	
BTBD9	114781	broad.mit.edu	37	6	38340762	38340762	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38340762delG	uc003ooa.3	-						BTBD9_uc003ony.3_Intron|BTBD9_uc010jwv.2_Intron|BTBD9_uc010jww.2_Intron|BTBD9_uc010jwx.2_Intron	NM_052893	NP_443125	Q96Q07	BTBD9_HUMAN	BTB (POZ) domain containing 9 isoform a						cell adhesion						0						CCTTTTTTATGGGGGAGGAAG	0.463													1	5	---	---	---	---	
PGC	5225	broad.mit.edu	37	6	41715415	41715415	+	5'Flank	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41715415delG	uc003ora.1	-							NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor						digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GGCATAATGTGTGCATTTAGG	0.408											OREG0004071	type=REGULATORY REGION|Gene=PGC|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	4	2	---	---	---	---	
FRS3	10817	broad.mit.edu	37	6	41738856	41738856	+	Frame_Shift_Del	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41738856delG	uc003orc.1	-	7	1224	c.980delC	c.(979-981)CCAfs	p.P327fs		NM_006653	NP_006644	O43559	FRS3_HUMAN	fibroblast growth factor receptor substrate 3	327					fibroblast growth factor receptor signaling pathway	plasma membrane	fibroblast growth factor receptor binding|insulin receptor binding			ovary(2)	2	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			AGGGGGCAGTGGGGGCAGGTT	0.677													18	10	---	---	---	---	
C6orf153	88745	broad.mit.edu	37	6	42989414	42989419	+	In_Frame_Del	DEL	GCCGGG	-	-	rs3833662		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:42989414_42989419delGCCGGG	uc003otp.1	+	1	30_35	c.22_27delGCCGGG	c.(22-27)GCCGGGdel	p.AG14del		NM_033112	NP_149103	Q96EU6	RRP36_HUMAN	hypothetical protein LOC88745	14_15					ribosomal small subunit biogenesis|rRNA processing	nucleolus					0			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			TAACTAccgcgccggggccggggccg	0.529													3	3	---	---	---	---	
CAPN11	11131	broad.mit.edu	37	6	44149619	44149620	+	Intron	DEL	CA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44149619_44149620delCA	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)			catacacacTCACATACAGACA	0.064													4	2	---	---	---	---	
CLIC5	53405	broad.mit.edu	37	6	46046103	46046104	+	Intron	INS	-	A	A	rs76654961		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46046103_46046104insA	uc003oxv.3	-							NM_001114086	NP_001107558	Q9NZA1	CLIC5_HUMAN	chloride intracellular channel 5 isoform a						female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)|skin(1)	2						tctcaaaaaagaaaaaaaaaaa	0.149													4	2	---	---	---	---	
TNFRSF21	27242	broad.mit.edu	37	6	47200309	47200310	+	3'UTR	DEL	AG	-	-	rs112278570		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47200309_47200310delAG	uc003oyv.2	-	6						NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,						cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			TAAAAAAAAAAGAGAGAGAGAG	0.267													3	3	---	---	---	---	
CD2AP	23607	broad.mit.edu	37	6	47469345	47469348	+	Intron	DEL	ACTC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47469345_47469348delACTC	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)			gtctgGTCATACTCACTTTCCTTT	0.211													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	51245460	51245461	+	IGR	DEL	TG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51245460_51245461delTG								TFAP2B (430135 upstream) : PKHD1 (234684 downstream)																							TGAGGCAGACTGAGGTCTTGCC	0.535													3	3	---	---	---	---	
C6orf142	90523	broad.mit.edu	37	6	54119589	54119590	+	Intron	INS	-	G	G	rs145535744	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54119589_54119590insG	uc003pcg.3	+						C6orf142_uc003pch.3_Intron|C6orf142_uc011dxa.1_Intron	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523							nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					cttccCCCCCCACTTTCCTGCC	0.257													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	56295350	56295350	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56295350delA								COL21A1 (36458 upstream) : DST (27437 downstream)																							ATAGCAAAGCAAAAAAAAAAA	0.413													4	3	---	---	---	---	
DST	667	broad.mit.edu	37	6	56765607	56765607	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56765607delC	uc003pdf.2	-							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)			CTTTAAAGCACCCCAGTATTT	0.398													4	2	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57369651	57369651	+	Intron	DEL	T	-	-	rs67817875		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57369651delT	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)		CGATTTAACCTGGATAGATAT	0.318													4	2	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57415142	57415142	+	Intron	DEL	A	-	-	rs11346545		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57415142delA	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)		CTTTTCATTTAAAAAGTATAA	0.338													4	3	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57488322	57488323	+	Intron	INS	-	T	T	rs146963883		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57488322_57488323insT	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)		attcccatcactttttttttga	0.000													4	4	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57503262	57503262	+	Intron	DEL	C	-	-	rs66721860		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57503262delC	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)		TACAAAAAAACCCCCTAAGTT	0.264													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57515335	57515336	+	IGR	INS	-	AAAAG	AAAAG	rs150958829		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57515335_57515336insAAAAG								PRIM2 (1960 upstream) : GUSBL2 (730823 downstream)																							GTAGCCAGTGAAAAAGATTATG	0.356													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57517065	57517065	+	IGR	DEL	A	-	-	rs67005360		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57517065delA								PRIM2 (3690 upstream) : GUSBL2 (729094 downstream)																							ACATTTTTTTAAGAGATCTTA	0.348													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57518368	57518369	+	IGR	INS	-	TGTT	TGTT	rs146375109		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57518368_57518369insTGTT								PRIM2 (4993 upstream) : GUSBL2 (727790 downstream)																							tgtttcccttatgttttatagt	0.000													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57522633	57522634	+	IGR	INS	-	T	T	rs147690010		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57522633_57522634insT								PRIM2 (9258 upstream) : GUSBL2 (723525 downstream)																							gttttgttttatttttttctga	0.005													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	64073884	64073885	+	IGR	INS	-	A	A	rs138402602	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64073884_64073885insA								LGSN (44002 upstream) : PTP4A1 (157766 downstream)																							aaaaacatgccaattgtaaaga	0.005													2	5	---	---	---	---	
EYS	346007	broad.mit.edu	37	6	64500816	64500817	+	Intron	INS	-	T	T	rs146849061	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64500816_64500817insT	uc011dxu.1	-						EYS_uc011dxt.1_Intron	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						CAGCTGTATCCTTCCTTTCTGT	0.475													1	8	---	---	---	---	
EYS	346007	broad.mit.edu	37	6	64669148	64669149	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64669148_64669149insA	uc011dxu.1	-						EYS_uc011dxt.1_Intron	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						caacaaacatgaaaaaaagttc	0.000													4	2	---	---	---	---	
EYS	346007	broad.mit.edu	37	6	64951550	64951551	+	Intron	INS	-	TG	TG	rs75238277		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64951550_64951551insTG	uc011dxu.1	-						EYS_uc011dxt.1_Intron	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						ttgaaggtttttgtgtgtgtgt	0.000													3	6	---	---	---	---	
EYS	346007	broad.mit.edu	37	6	65083062	65083062	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:65083062delT	uc011dxu.1	-						EYS_uc011dxt.1_Intron	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						tattgtgctgttttttcctta	0.000													2	7	---	---	---	---	
EYS	346007	broad.mit.edu	37	6	66092351	66092354	+	Intron	DEL	TGTG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66092351_66092354delTGTG	uc011dxu.1	-						EYS_uc003peq.2_Intron|EYS_uc003per.1_Intron	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						tcctttcctctgtgtgtgtgtgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	66959792	66959792	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66959792delA								MCART3P (460417 upstream) : None (None downstream)																							aaaaccctagaaaaaaacatg	0.000													4	2	---	---	---	---	
RIMS1	22999	broad.mit.edu	37	6	72960180	72960181	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:72960180_72960181insA	uc003pga.2	+						RIMS1_uc011dyb.1_Intron|RIMS1_uc003pgc.2_Intron|RIMS1_uc010kaq.2_Intron|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Intron|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Intron|RIMS1_uc003pge.2_Intron|RIMS1_uc011dye.1_5'Flank|RIMS1_uc003pgb.3_Intron|RIMS1_uc010kas.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1						calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				AATAATTTTAGAAAAAAAAAAT	0.292													6	5	---	---	---	---	
FILIP1	27145	broad.mit.edu	37	6	76200354	76200355	+	Intron	DEL	TG	-	-	rs66630732		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76200354_76200355delTG	uc003pia.2	-						FILIP1_uc003phy.1_Intron|FILIP1_uc010kbe.2_Intron	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1											skin(3)|ovary(1)	4						ACACAGGATTtgtgtgtgtgtg	0.267													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	82467139	82467139	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:82467139delG								FAM46A (4711 upstream) : IBTK (412817 downstream)																							CTGCCTTTGTGGTGCAAATCC	0.483													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	84695634	84695635	+	IGR	INS	-	C	C	rs142808003	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:84695634_84695635insC								CYB5R4 (25490 upstream) : MRAP2 (47785 downstream)																							AAGCTGATGAACCCCCTATCCA	0.366													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	86099616	86099617	+	Intron	INS	-	AT	AT	rs71296900		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86099616_86099617insAT	uc003pkm.2	-											Homo sapiens cDNA: FLJ21345 fis, clone COL02694.																		gtgccaggaacagtccCTGAAA	0.302													2	4	---	---	---	---	
RNGTT	8732	broad.mit.edu	37	6	89516038	89516038	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89516038delT	uc003pmr.2	-						RNGTT_uc003pms.2_Intron|RNGTT_uc011dzu.1_Intron|RNGTT_uc003pmt.2_Intron	NM_003800	NP_003791	O60942	MCE1_HUMAN	RNA guanylyltransferase and 5'-phosphatase						interspecies interaction between organisms|mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	GTP binding|mRNA guanylyltransferase activity|polynucleotide 5'-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;4.07e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;6.86e-05)		BRCA - Breast invasive adenocarcinoma(108;0.151)		aggaacacgcttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	109127112	109127112	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:109127112delA								FOXO3 (121141 upstream) : ARMC2 (42507 downstream)																							GATTAAACAGAAGGCCAAGGT	0.219													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	110745900	110745901	+	IGR	DEL	TG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110745900_110745901delTG								DDO (9147 upstream) : SLC22A16 (6 downstream)																							TTTTTAAAACTGAGAATTTTCA	0.282													3	3	---	---	---	---	
CDK19	23097	broad.mit.edu	37	6	110959261	110959261	+	Intron	DEL	T	-	-	rs75567397		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110959261delT	uc003puh.1	-						CDK19_uc003pui.1_Intron|CDK19_uc011eax.1_Intron	NM_015076	NP_055891	Q9BWU1	CDK19_HUMAN	cell division cycle 2-like 6 (CDK8-like)								ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						ATGATGCTGATTTTTTTTTTT	0.264													4	2	---	---	---	---	
SLC35F1	222553	broad.mit.edu	37	6	118425260	118425264	+	Intron	DEL	CCCTT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118425260_118425264delCCCTT	uc003pxx.3	+							NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1						transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		TTcttccctccccttcccttccctt	0.263													2	4	---	---	---	---	
THEMIS	387357	broad.mit.edu	37	6	128061008	128061009	+	Intron	INS	-	TA	TA	rs148743607	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128061008_128061009insTA	uc003qbi.2	-						THEMIS_uc010kfa.2_Intron|THEMIS_uc011ebt.1_Intron|THEMIS_uc010kfb.2_Intron	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform						negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						TAAGGTTCCACTATGAATAGTC	0.411													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	133089745	133089746	+	IGR	INS	-	TTC	TTC	rs146821435	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:133089745_133089746insTTC								VNN2 (5147 upstream) : C6orf192 (761 downstream)																							ttttgctcctattccccaattc	0.144													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	135003558	135003558	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135003558delT								SGK1 (364362 upstream) : ALDH8A1 (234971 downstream)																							gtttttaaacttattggtata	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	147924924	147924925	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:147924924_147924925insA								SAMD5 (33767 upstream) : SASH1 (738804 downstream)																							Aaaaacaaaacaaaaaaaaaca	0.277													4	3	---	---	---	---	
ARID1B	57492	broad.mit.edu	37	6	157497316	157497316	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:157497316delC	uc003qqn.2	+						ARID1B_uc003qqo.2_Intron|ARID1B_uc003qqp.2_Intron|ARID1B_uc010kjl.2_Intron	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)						chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TTCGCTCTTACCTTCTCTGTA	0.453													0	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	159947266	159947266	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159947266delA								FNDC1 (254127 upstream) : SOD2 (152885 downstream)																							CTCGGCTCTTAGAGTGCGTAA	0.443													8	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	160268244	160268244	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160268244delC								PNLDC1 (26509 upstream) : MAS1 (59730 downstream)																							TTGTTAAGTGCACACTGGGAG	0.413													4	2	---	---	---	---	
RPS6KA2	6196	broad.mit.edu	37	6	167073817	167073818	+	Intron	DEL	TG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167073817_167073818delTG	uc003qvd.1	-						RPS6KA2_uc003qvc.1_Intron	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide						axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|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	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		tgtgtgtgcatgtgtgtgtgtg	0.158													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	168513	168529	+	IGR	DEL	GATCCGTGTCCCTAGTA	-	-	rs55933249		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:168513_168529delGATCCGTGTCCCTAGTA								None (None upstream) : FAM20C (24440 downstream)																							GTCCCTGGTGGATCCGTGTCCCTAGTAGATCCGTCTC	0.654													4	2	---	---	---	---	
PRKAR1B	5575	broad.mit.edu	37	7	623187	623188	+	Intron	DEL	AC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:623187_623188delAC	uc003siu.1	-						PRKAR1B_uc003siv.2_Intron|PRKAR1B_uc003siw.1_Intron|PRKAR1B_uc003six.1_Intron	NM_002735	NP_002726	P31321	KAP1_HUMAN	protein kinase, cAMP-dependent, regulatory, type						activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)		cacgtgccaaacacatgcgtgc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	1306266	1306266	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1306266delC								UNCX (29654 upstream) : MICALL2 (167730 downstream)																							CTGTGTAGGGCTGGGGGACAG	0.512													5	3	---	---	---	---	
TMEM184A	202915	broad.mit.edu	37	7	1586653	1586654	+	In_Frame_Ins	INS	-	GCC	GCC	rs140579959	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1586653_1586654insGCC	uc003skv.3	-	9	1493_1494	c.1176_1177insGGC	c.(1174-1179)insGGC	p.392_393insG	TMEM184A_uc003skt.3_In_Frame_Ins_p.371_372insG|TMEM184A_uc003skw.3_In_Frame_Ins_p.197_198insG	NM_001097620	NP_001091089	Q6ZMB5	T184A_HUMAN	transmembrane protein 184A	392_393						integral to membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;5.88e-15)		CTCCCGCCGGAGCCGCCGCTGG	0.708													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	1693465	1693470	+	IGR	DEL	ACACAT	-	-	rs72074927		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1693465_1693470delACACAT								TFAMP1 (37138 upstream) : ELFN1 (55328 downstream)																							acataggcacacacatacgtacatgc	0.000													0	6	---	---	---	---	
MAD1L1	8379	broad.mit.edu	37	7	2081469	2081470	+	Intron	INS	-	T	T	rs72557556	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2081469_2081470insT	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)		GCAGCCCACAGGGGGGAGGGAT	0.569													3	4	---	---	---	---	
LOC389458	389458	broad.mit.edu	37	7	5026171	5026171	+	Intron	DEL	A	-	-	rs66765645		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5026171delA	uc003snr.2	+						RNF216L_uc003snp.3_Intron|RNF216L_uc003snq.3_Intron|RNF216L_uc010ksr.2_Intron|RNF216L_uc011jwe.1_Intron					Synthetic construct DNA, clone: pF1KB3788, Homo sapiens RBAK gene for RB-associated KRAB repressor, complete cds, without stop codon, in Flexi system.												0						TTTTTTTTTTAAATCTCCTTG	0.398													1	5	---	---	---	---	
DAGLB	221955	broad.mit.edu	37	7	6492548	6492549	+	Intron	DEL	AA	-	-	rs67252315		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6492548_6492549delAA	uc003sqd.3	-							NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1						lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		actttgtctcaaaaaaaaaaaa	0.233													4	3	---	---	---	---	
C7orf28B	221960	broad.mit.edu	37	7	6840334	6840334	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6840334delT	uc003sqx.1	-						C7orf28B_uc011jxd.1_Intron	NM_198097	NP_932765	P86791	CCZ1_HUMAN	hypothetical protein LOC221960							lysosomal membrane					0		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)		TATAAAGTCATTTTTTTTTTT	0.204													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	6934732	6934733	+	IGR	INS	-	AGAA	AGAA	rs151134922	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6934732_6934733insAGAA								C7orf28B (68871 upstream) : C1GALT1 (287513 downstream)																							gagaaaaagagagaaagaaaga	0.045													3	3	---	---	---	---	
TMEM106B	54664	broad.mit.edu	37	7	12260713	12260714	+	Intron	INS	-	GTGTGTGT	GTGTGTGT	rs138116544	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12260713_12260714insGTGTGTGT	uc011jxk.1	+						TMEM106B_uc003ssh.2_Intron	NM_018374	NP_060844	Q9NUM4	T106B_HUMAN	transmembrane protein 106B							integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (126;0.185)		AAGCAAGTAAAgtgtgtgtgtg	0.267													3	4	---	---	---	---	
ETV1	2115	broad.mit.edu	37	7	13947605	13947606	+	Intron	INS	-	T	T	rs150348781	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:13947605_13947606insT	uc011jxq.1	-						ETV1_uc011jxn.1_Intron|ETV1_uc011jxo.1_Intron|ETV1_uc011jxp.1_Intron|ETV1_uc003ssw.3_Intron|ETV1_uc003ssx.2_Intron|ETV1_uc011jxr.1_Intron|ETV1_uc011jxs.1_Intron|ETV1_uc010ktv.2_Intron	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a						transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						ATTTATCTCAGTTTTTCCTTCT	0.287			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								3	6	---	---	---	---	
ISPD	729920	broad.mit.edu	37	7	16168892	16168892	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:16168892delA	uc010ktx.2	-						ISPD_uc010kty.2_Intron	NM_001101426	NP_001094896	A4D126	ISPD_HUMAN	notch1-induced protein isoform a						isoprenoid biosynthetic process		nucleotidyltransferase activity			ovary(1)	1						GCTTGGATACAAAAGTTGCTA	0.393										Multiple Myeloma(15;0.18)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	16770638	16770639	+	IGR	INS	-	T	T	rs143277252	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:16770638_16770639insT								BZW2 (24490 upstream) : TSPAN13 (22712 downstream)																							gcttcagcacctatgttgaaac	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	17330377	17330378	+	IGR	INS	-	AC	AC	rs140692435	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:17330377_17330378insAC								AGR3 (408764 upstream) : AHR (7898 downstream)																							TCTCTCTGTGTacacacacaca	0.267													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	19642685	19642685	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:19642685delC								FERD3L (457641 upstream) : TWISTNB (92400 downstream)																							ctctaccacaccatgatatat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	20912567	20912568	+	IGR	DEL	AG	-	-	rs34821641		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20912567_20912568delAG								RPL23P8 (45128 upstream) : SP4 (555121 downstream)																							acagacagacaGAGAGAGAGAG	0.035													3	3	---	---	---	---	
DNAH11	8701	broad.mit.edu	37	7	21847731	21847731	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21847731delC	uc003svc.2	+							NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11						microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AGTAGTAAAACCCACATATAT	0.403									Kartagener_syndrome				4	2	---	---	---	---	
RAPGEF5	9771	broad.mit.edu	37	7	22392031	22392031	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:22392031delA	uc003svg.2	-							NM_012294	NP_036426	Q92565	RPGF5_HUMAN	Rap guanine nucleotide exchange factor (GEF) 5						nervous system development|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	nucleus	GTP-dependent protein binding|Rap guanyl-nucleotide exchange factor activity			ovary(1)	1						TTGTCAGTTTAAAAAAAAAAA	0.179													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	22624676	22624676	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:22624676delT								MGC87042 (84878 upstream) : IL6 (140827 downstream)																							ggtatgtgggttttttcccca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	24264700	24264700	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:24264700delA								STK31 (320335 upstream) : NPY (59109 downstream)																							TTCCAAGAACAAATGGACATG	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	26048674	26048675	+	IGR	DEL	TG	-	-	rs2391219		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:26048674_26048675delTG								MIR148A (59068 upstream) : NFE2L3 (143172 downstream)																							tttgtttgtttgtttttttttt	0.173													4	2	---	---	---	---	
JAZF1	221895	broad.mit.edu	37	7	27875164	27875165	+	Intron	DEL	AT	-	-	rs72317256		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27875164_27875165delAT	uc003szn.2	-						JAZF1_uc003szm.2_Intron	NM_175061	NP_778231	Q86VZ6	JAZF1_HUMAN	JAZF zinc finger 1						negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcriptional repressor complex	nucleic acid binding|transcription corepressor activity|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131						ATTTAGAAACATAAAGTATTTC	0.431			T	SUZ12	endometrial stromal tumours								6	3	---	---	---	---	
SCRN1	9805	broad.mit.edu	37	7	29964800	29964800	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29964800delT	uc010kvp.2	-						SCRN1_uc011jzy.1_Intron|SCRN1_uc003tak.2_Intron|SCRN1_uc011jzz.1_Intron|SCRN1_uc011kaa.1_Intron|SCRN1_uc011jzw.1_Intron|SCRN1_uc011jzx.1_Intron	NM_001145515	NP_001138987	Q12765	SCRN1_HUMAN	secernin 1 isoform c						exocytosis|proteolysis	cytoplasm|nuclear membrane	dipeptidase activity			ovary(2)	2						TCTGCCAGCCTTTTTAGGCTG	0.463													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	30212073	30212075	+	IGR	DEL	GTT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:30212073_30212075delGTT								C7orf41 (9692 upstream) : ZNRF2 (111848 downstream)																							ttctgccatggttgttaagtttc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	30280510	30280512	+	IGR	DEL	GAA	-	-	rs67386532		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:30280510_30280512delGAA								C7orf41 (78129 upstream) : ZNRF2 (43411 downstream)																							CCTCAGGAATGAAGAAGACTCTG	0.281													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	31497331	31497331	+	IGR	DEL	G	-	-	rs112637832		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31497331delG								NEUROD6 (116793 upstream) : CCDC129 (56354 downstream)																							CAGGAGCAAAGGGTAGGATGT	0.502													2	4	---	---	---	---	
PDE1C	5137	broad.mit.edu	37	7	32205197	32205197	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:32205197delC	uc003tco.1	-							NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C						activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			aggggaaatgccagaagctta	0.000													4	2	---	---	---	---	
BMPER	168667	broad.mit.edu	37	7	34112048	34112049	+	Intron	INS	-	T	T	rs71554123		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:34112048_34112049insT	uc011kap.1	+							NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor						blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						aagagaatcgattttttttttt	0.000													6	3	---	---	---	---	
AAA1	404744	broad.mit.edu	37	7	34485090	34485090	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:34485090delA	uc010kwo.1	-						AAA1_uc010kwp.1_Intron|AAA1_uc003tdz.2_Intron|AAA1_uc010kwq.1_Intron					Homo sapiens AAA1 variant IA mRNA, complete cds; alternatively spliced.												0						GGAAAAGGGGAAAAAAAAAAC	0.383													4	2	---	---	---	---	
ELMO1	9844	broad.mit.edu	37	7	37187437	37187438	+	Intron	INS	-	AA	AA	rs142558846		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37187437_37187438insAA	uc003tfk.1	-						ELMO1_uc011kbc.1_Intron|ELMO1_uc010kxg.1_Intron	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1						actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						AGAAAAGTTGGAAAAAAAAAAA	0.267													3	3	---	---	---	---	
VPS41	27072	broad.mit.edu	37	7	38782687	38782687	+	Intron	DEL	C	-	-	rs11297834		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38782687delC	uc003tgy.2	-						VPS41_uc003tgz.2_Intron|VPS41_uc010kxn.2_Intron|VPS41_uc003tgx.2_Intron	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1						Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						CAAAAAAAAACCACACCAACA	0.358													4	3	---	---	---	---	
POU6F2	11281	broad.mit.edu	37	7	39147878	39147879	+	Intron	INS	-	T	T	rs113632111		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:39147878_39147879insT	uc003thb.1	+						POU6F2_uc010kxo.2_Intron	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						CCcttcaattattttttttttt	0.223													4	2	---	---	---	---	
C7orf10	79783	broad.mit.edu	37	7	40335193	40335194	+	Intron	INS	-	AAAT	AAAT	rs142245539	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:40335193_40335194insAAAT	uc003thn.1	+						C7orf10_uc003thm.1_Intron|C7orf10_uc003tho.1_Intron	NM_024728	NP_079004	Q9HAC7	CG010_HUMAN	dermal papilla derived protein 13								transferase activity			ovary(2)	2						aacaaacaaacaaataaaagaa	0.129													2	4	---	---	---	---	
OGDH	4967	broad.mit.edu	37	7	44740622	44740623	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44740622_44740623insA	uc003tln.2	+						OGDH_uc011kbx.1_Intron|OGDH_uc011kby.1_Intron|OGDH_uc003tlp.2_Intron|OGDH_uc011kbz.1_Intron	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor						glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	gactccgtctcaaaaaacaaaa	0.292													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	49963207	49963208	+	IGR	INS	-	CTTCTT	CTTCTT	rs145589122	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:49963207_49963208insCTTCTT								VWC2 (11069 upstream) : ZPBP (13818 downstream)																							aaatatgaaaacttcttcttct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	52481639	52481640	+	IGR	INS	-	AGGA	AGGA	rs139820965	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:52481639_52481640insAGGA								None (None upstream) : POM121L12 (621709 downstream)																							aaggaagagagaggaaggaagg	0.035													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	53591058	53591059	+	IGR	DEL	TG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:53591058_53591059delTG								POM121L12 (486441 upstream) : HPVC1 (677858 downstream)																							atttttgttatgtgtgtgtgtg	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	57071802	57071804	+	IGR	DEL	CCC	-	-	rs62463101	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57071802_57071804delCCC								DKFZp434L192 (506825 upstream) : ZNF479 (115524 downstream)																							Gcctcctcctccccctcctcctc	0.172													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	57628416	57628417	+	IGR	INS	-	A	A	rs150287172	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57628416_57628417insA								ZNF716 (95151 upstream) : None (None downstream)																							AAAACAAAAACAAAAAGAAGTC	0.381													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	57714133	57714134	+	IGR	INS	-	G	G	rs149586851	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57714133_57714134insG								ZNF716 (180868 upstream) : None (None downstream)																							aggagcaaagagtttctgcaaa	0.050													7	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	61526871	61526871	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61526871delT								None (None upstream) : None (None downstream)																							atgtgggctctttttttggtt	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	61903103	61903104	+	IGR	INS	-	T	T	rs140478169	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61903103_61903104insT								None (None upstream) : LOC643955 (848568 downstream)																							ggaaaatcttcgataaaaatta	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	63297133	63297133	+	IGR	DEL	T	-	-	rs35039528		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:63297133delT								LOC100287704 (484982 upstream) : ZNF727 (208688 downstream)																							ccttccctgcttttggagtct	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	64299986	64299986	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:64299986delG								ZNF138 (5963 upstream) : LOC168474 (10085 downstream)																							ggaaaaaggaggggtactcac	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	65276526	65276526	+	IGR	DEL	A	-	-	rs5884574		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:65276526delA								CCT6P1 (47865 upstream) : VKORC1L1 (61731 downstream)																							taaagcctataatcccagcac	0.134													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	65278416	65278419	+	IGR	DEL	CTCA	-	-	rs141731195		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:65278416_65278419delCTCA								CCT6P1 (49755 upstream) : VKORC1L1 (59838 downstream)																							gagacagggtctcactctgtcacc	0.005													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	65565438	65565448	+	IGR	DEL	AGAATGAGGAG	-	-	rs112102961		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:65565438_65565448delAGAATGAGGAG								ASL (7117 upstream) : CRCP (14357 downstream)																							aggaggaaaaagaatgaggaggaggaaagag	0.024													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	67049377	67049377	+	IGR	DEL	T	-	-	rs144822794		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:67049377delT								STAG3L4 (262865 upstream) : None (None downstream)																							CAAAAGCCACTGCAGATAAAG	0.448													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	70582343	70582350	+	IGR	DEL	CACACACA	-	-	rs112915363		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70582343_70582350delCACACACA								AUTS2 (324459 upstream) : WBSCR17 (15439 downstream)																							cgcacacgtgcacacacacacacacaca	0.120													4	3	---	---	---	---	
WBSCR17	64409	broad.mit.edu	37	7	70647166	70647169	+	Intron	DEL	AAAT	-	-	rs4719091	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70647166_70647169delAAAT	uc003tvy.2	+							NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				catctaaaaaaaataaataaaTAA	0.196													2	4	---	---	---	---	
RFC2	5982	broad.mit.edu	37	7	73182657	73182657	+	Intron	DEL	T	-	-	rs71803562		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73182657delT	uc011kfa.1	-							NM_181471		P35250	RFC2_HUMAN	replication factor C 2 isoform 1						cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding			liver(1)|central_nervous_system(1)	2						acccagttaattttttttttt	0.020													3	3	---	---	---	---	
CLIP2	7461	broad.mit.edu	37	7	73712151	73712151	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73712151delT	uc003uam.2	+						CLIP2_uc003uan.2_Intron	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2							microtubule associated complex				skin(3)	3						CAtttttttcttttttttttg	0.259													2	4	---	---	---	---	
CLIP2	7461	broad.mit.edu	37	7	73793660	73793660	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73793660delA	uc003uam.2	+						CLIP2_uc003uan.2_Intron|CLIP2_uc003uao.2_Intron	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2							microtubule associated complex				skin(3)	3						ctccgtctggaaaaaaaaaaa	0.199													3	3	---	---	---	---	
GTF2IRD1	9569	broad.mit.edu	37	7	73910847	73910850	+	Intron	DEL	GTGT	-	-	rs75195557		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73910847_73910850delGTGT	uc003uaq.2	+						GTF2IRD1_uc010lbq.2_Intron|GTF2IRD1_uc003uap.2_Intron	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1							nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						gtgggtgtgcgtgtgtgggtgtgc	0.000													5	3	---	---	---	---	
GTF2I	2969	broad.mit.edu	37	7	74103678	74103687	+	Intron	DEL	TTTACTTTTT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:74103678_74103687delTTTACTTTTT	uc003uau.2	+						GTF2I_uc003uat.2_Intron|GTF2I_uc003uav.2_Intron|GTF2I_uc003uaw.2_Intron|GTF2I_uc003uay.2_Intron|GTF2I_uc003uax.2_Intron	NM_032999	NP_127492	P78347	GTF2I_HUMAN	general transcription factor IIi isoform 1						negative regulation of angiogenesis|signal transduction|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						GTACTTTTTCTTTACttttttttttttttt	0.162													4	2	---	---	---	---	
PMS2L11	441263	broad.mit.edu	37	7	76628208	76628209	+	Intron	DEL	GG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76628208_76628209delGG	uc003ufw.3	+						PMS2L11_uc011kgn.1_Intron	NR_023383				Homo sapiens cDNA FLJ59034 complete cds, moderately similar to Protein deltex-2.												0						gggtgtgtgtgggggggtgtgg	0.000													4	2	---	---	---	---	
MAGI2	9863	broad.mit.edu	37	7	77668210	77668210	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77668210delT	uc003ugx.2	-						MAGI2_uc003ugy.2_Intron	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ							cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TCACGTCACGTTACCGGCATA	0.428													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	91521752	91521753	+	IGR	INS	-	AA	AA	rs150841091	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91521752_91521753insAA								MTERF (11736 upstream) : AKAP9 (48436 downstream)																							AGCCAAACGCGGTTTCCCCTTC	0.495													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	93847033	93847036	+	IGR	DEL	TAAC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:93847033_93847036delTAAC								BET1 (213343 upstream) : COL1A2 (176837 downstream)																							acacacacagtaactatgtgaggt	0.000													11	7	---	---	---	---	
PPP1R9A	55607	broad.mit.edu	37	7	94698029	94698031	+	Intron	DEL	GTG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94698029_94698031delGTG	uc003unp.2	+						PPP1R9A_uc010lfj.2_Intron|PPP1R9A_uc011kif.1_Intron|PPP1R9A_uc003unq.2_Intron|PPP1R9A_uc011kig.1_Intron	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)							cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			CAGCATCCCTGTGGTGGATAGTG	0.360										HNSCC(28;0.073)			4	3	---	---	---	---	
BAIAP2L1	55971	broad.mit.edu	37	7	98015040	98015041	+	Intron	INS	-	T	T	rs144554018	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98015040_98015041insT	uc003upj.2	-							NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1						filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			ATCAACATTTCTTTTTTTTGTT	0.178													10	6	---	---	---	---	
LRCH4	4034	broad.mit.edu	37	7	100178288	100178289	+	Intron	INS	-	CACA	CACA			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100178288_100178289insCACA	uc003uvj.2	-						LRCH4_uc010lgz.2_Intron|LRCH4_uc003uvi.2_Intron|LRCH4_uc011kjw.1_5'Flank|LRCH4_uc011kjx.1_Intron	NM_002319	NP_002310	O75427	LRCH4_HUMAN	leucine-rich repeats and calponin homology (CH)						nervous system development	PML body	protein binding			large_intestine(1)|ovary(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					acatacacatgcacagacacac	0.000													4	2	---	---	---	---	
ZAN	7455	broad.mit.edu	37	7	100354783	100354783	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100354783delT	uc003uwj.2	+						ZAN_uc003uwk.2_Intron|ZAN_uc003uwl.2_Intron|ZAN_uc010lhh.2_Intron|ZAN_uc010lhi.2_Intron	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3						binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			TTTTTTGGGGttttttttttg	0.129													3	4	---	---	---	---	
EPHB4	2050	broad.mit.edu	37	7	100419850	100419850	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100419850delC	uc003uwn.1	-						EPHB4_uc003uwm.1_Intron|EPHB4_uc010lhj.1_Intron|EPHB4_uc011kkf.1_Intron|EPHB4_uc011kkg.1_Intron|EPHB4_uc011kkh.1_Intron	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor						cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					TCAGGACTCTCCCCCGGATGA	0.458													4	2	---	---	---	---	
TRIP6	7205	broad.mit.edu	37	7	100468612	100468612	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100468612delC	uc003uww.2	+							NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6						focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					gtgttagattcccatgacacc	0.139													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	100740935	100740936	+	IGR	INS	-	AGGTTTGGGA	AGGTTTGGGA	rs147009907	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100740935_100740936insAGGTTTGGGA								TRIM56 (5927 upstream) : SERPINE1 (29443 downstream)																							CATTAGGAAGGAGGTTTGGGAG	0.495													5	3	---	---	---	---	
SERPINE1	5054	broad.mit.edu	37	7	100773282	100773282	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100773282delA	uc003uxt.2	+						SERPINE1_uc011kkj.1_Intron|SERPINE1_uc003uxu.1_5'Flank	NM_000602	NP_000593	P05121	PAI1_HUMAN	plasminogen activator inhibitor-1 isoform 1						angiogenesis|cellular response to chemical stimulus|cellular response to lipopolysaccharide|chronological cell aging|defense response to Gram-negative bacterium|fibrinolysis|negative regulation of apoptosis|negative regulation of cell adhesion mediated by integrin|negative regulation of fibrinolysis|negative regulation of plasminogen activation|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell-matrix adhesion|negative regulation of vascular wound healing|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of interleukin-8 production|positive regulation of leukotriene production involved in inflammatory response|positive regulation of monocyte chemotaxis|positive regulation of receptor-mediated endocytosis|regulation of receptor activity	extracellular matrix|extracellular space|plasma membrane|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)				Atorvastatin(DB01076)|Dimethyl sulfoxide(DB01093)|Drotrecogin alfa(DB00055)|Simvastatin(DB00641)|Tenecteplase(DB00031)|Troglitazone(DB00197)|Urokinase(DB00013)	gccctgtctgaaaaaaaaaaa	0.025													3	3	---	---	---	---	
ZNHIT1	10467	broad.mit.edu	37	7	100862394	100862394	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100862394delT	uc003uye.2	+						PLOD3_uc003uyd.2_5'Flank|ZNHIT1_uc003uyf.2_RNA	NM_006349	NP_006340	O43257	ZNHI1_HUMAN	zinc finger, HIT domain containing 1								metal ion binding|protein binding			large_intestine(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					CAGCAAAGACttttttttttt	0.204													4	2	---	---	---	---	
CUX1	1523	broad.mit.edu	37	7	101778836	101778837	+	Intron	DEL	TG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101778836_101778837delTG	uc003uyx.3	+						CUX1_uc003uys.3_Intron|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a						negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						agggtcaacttgtgtgtgtgtg	0.089													4	2	---	---	---	---	
SLC26A5	375611	broad.mit.edu	37	7	103037542	103037542	+	Intron	DEL	A	-	-	rs35371194		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103037542delA	uc003vbz.2	-						SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_Intron|SLC26A5_uc003vbx.2_Intron|SLC26A5_uc003vby.2_Intron|SLC26A5_uc010liy.2_Intron	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a						regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						actcggtctcaaaaaaaaaga	0.000													4	2	---	---	---	---	
IMMP2L	83943	broad.mit.edu	37	7	110383918	110383918	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:110383918delT	uc003vfq.1	-						IMMP2L_uc010ljr.1_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)		gctggaggagttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	116444200	116444201	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116444200_116444201insA								MET (5761 upstream) : CAPZA2 (6923 downstream)																							aaaaacaaaacaaaaaaaaaGA	0.153													4	2	---	---	---	---	
CTTNBP2	83992	broad.mit.edu	37	7	117509021	117509021	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117509021delC	uc003vjf.2	-							NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2											ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		TTCCAAACTTCCCCACATTTC	0.438													4	2	---	---	---	---	
FAM3C	10447	broad.mit.edu	37	7	121023196	121023197	+	Intron	INS	-	A	A	rs35702337		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121023196_121023197insA	uc003vjx.2	-						FAM3C_uc010lkm.2_Intron	NM_014888	NP_055703	Q92520	FAM3C_HUMAN	family with sequence similarity 3, member C						multicellular organismal development	cytoplasmic membrane-bounded vesicle|extracellular region	cytokine activity				0	all_neural(327;0.117)					ACATTGGCATTAAAAAAAAAAA	0.208													4	2	---	---	---	---	
PTPRZ1	5803	broad.mit.edu	37	7	121627302	121627303	+	Intron	DEL	CA	-	-	rs34483542		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121627302_121627303delCA	uc003vjy.2	+						PTPRZ1_uc003vjz.2_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,						central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CAGTTCCCCTCACAGAGTCTCA	0.495													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	131586849	131586849	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:131586849delT								PODXL (345473 upstream) : PLXNA4 (221243 downstream)																							gcagacatgctgttcatattg	0.000													2	4	---	---	---	---	
PLXNA4	91584	broad.mit.edu	37	7	132248110	132248112	+	Intron	DEL	CTC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132248110_132248112delCTC	uc003vra.3	-						PLXNA4_uc003vrc.2_Intron|PLXNA4_uc003vrb.2_Intron	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1							integral to membrane|intracellular|plasma membrane				ovary(1)	1						cctcctctttctcctccttctcc	0.000													5	3	---	---	---	---	
NUP205	23165	broad.mit.edu	37	7	135307186	135307186	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:135307186delA	uc003vsw.2	+						NUP205_uc003vsx.2_Intron	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa						carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						aaaaagaaggaaaaaaaaaaa	0.164													4	2	---	---	---	---	
DENND2A	27147	broad.mit.edu	37	7	140220364	140220365	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140220364_140220365insT	uc010lnj.2	-						DENND2A_uc011kre.1_Intron|DENND2A_uc010lnk.2_Intron|DENND2A_uc003vvw.2_Intron	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A											ovary(3)|breast(1)	4	Melanoma(164;0.00956)					TCTTTCCAGGGttttttttttt	0.267													4	2	---	---	---	---	
FAM115A	9747	broad.mit.edu	37	7	143598861	143598861	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143598861delA	uc003wdo.1	-						FAM115A_uc003wdp.1_Intron	NM_014719	NP_055534	Q9Y4C2	F115A_HUMAN	hypothetical protein LOC9747												0	Melanoma(164;0.0903)					CAGAGGGCATAACAATGCGGC	0.522											OREG0018413	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	2	---	---	---	---	
SSPO	23145	broad.mit.edu	37	7	149512845	149512846	+	Frame_Shift_Ins	INS	-	AGGTGGTC	AGGTGGTC	rs146626309	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149512845_149512846insAGGTGGTC	uc010lpk.2	+	77	10852_10853	c.10852_10853insAGGTGGTC	c.(10852-10854)GAGfs	p.E3618fs		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3618					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GGAACCCGGAGAGGTGGTCACT	0.653													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	151125377	151125377	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151125377delT								WDR86 (17637 upstream) : CRYGN (1680 downstream)																							ttctttcttcttttttttttt	0.303													4	3	---	---	---	---	
MLL3	58508	broad.mit.edu	37	7	152101632	152101633	+	Intron	INS	-	CTC	CTC	rs147073720		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152101632_152101633insCTC	uc003wla.2	-							NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3						intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ggcaggaaaatctgaatccggg	0.005			N		medulloblastoma								4	2	---	---	---	---	
MLL3	58508	broad.mit.edu	37	7	152103925	152103926	+	Intron	INS	-	GT	GT	rs11419517		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152103925_152103926insGT	uc003wla.2	-							NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3						intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTATTTTTTGGTTTTTTTTTTC	0.267			N		medulloblastoma								6	4	---	---	---	---	
MLL3	58508	broad.mit.edu	37	7	152112678	152112678	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152112678delA	uc003wla.2	-							NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3						intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		aataaaattcaaaaaaaggct	0.060			N		medulloblastoma								6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	152733221	152733222	+	IGR	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152733221_152733222delGT								ACTR3B (180758 upstream) : DPP6 (851197 downstream)																							TAAATTTtgcgtgtgtgtgtgt	0.144													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	152872454	152872455	+	IGR	DEL	AC	-	-	rs79544426		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152872454_152872455delAC								ACTR3B (319991 upstream) : DPP6 (711964 downstream)																							atcaccacagacatgtgagtaa	0.000													3	4	---	---	---	---	
DPP6	1804	broad.mit.edu	37	7	154541510	154541511	+	Intron	DEL	AG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:154541510_154541511delAG	uc003wlk.2	+						DPP6_uc003wli.2_Intron|DPP6_uc003wlm.2_Intron|DPP6_uc011kvq.1_Intron	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1						cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			AGGACGGGAAAGAGAGGGATGG	0.460													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	155077131	155077131	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:155077131delC								HTR5A (199672 upstream) : INSIG1 (12355 downstream)																							ACACTAACCTCCGGAGTGCAG	0.498													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	156291835	156291836	+	IGR	DEL	AC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:156291835_156291836delAC								SHH (686868 upstream) : C7orf4 (41349 downstream)																							acgaacacagacacacacacag	0.114													3	3	---	---	---	---	
PTPRN2	5799	broad.mit.edu	37	7	157948166	157948167	+	Intron	INS	-	GTATT	GTATT			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:157948166_157948167insGTATT	uc003wno.2	-						PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		catcatcaccatcaccatcatc	0.079													4	2	---	---	---	---	
DLC1	10395	broad.mit.edu	37	8	13152201	13152202	+	Intron	INS	-	A	A	rs142653833	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:13152201_13152202insA	uc003wwm.2	-						DLC1_uc003wwn.2_Intron	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1						actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CCAGATTACGGAAAAAATTTAT	0.312													4	5	---	---	---	---	
C8orf41	80185	broad.mit.edu	37	8	33339135	33339136	+	Intron	INS	-	GT	GT	rs150279994	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33339135_33339136insGT	uc010lvu.1	-									Q6NXR4	CH041_HUMAN	Homo sapiens cDNA: FLJ23263 fis, clone COL06129.								binding				0				KIRC - Kidney renal clear cell carcinoma(67;0.0923)|Kidney(114;0.111)		TTCAGGGTTTCgtgtgtgtgtg	0.396													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	33570079	33570080	+	IGR	INS	-	A	A	rs117269833		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33570079_33570080insA								DUSP26 (112640 upstream) : None (None downstream)																							ccctgtctcagaaaaaaaaaaa	0.178													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	33590948	33590951	+	IGR	DEL	CCTT	-	-	rs74782438		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33590948_33590951delCCTT								DUSP26 (133509 upstream) : None (None downstream)																							tcccttcctcccttcctTcagcgt	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	37308079	37308079	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37308079delA								KCNU1 (514438 upstream) : ZNF703 (245222 downstream)																							ggagaaaaggaaggagctggg	0.100													4	2	---	---	---	---	
ANK1	286	broad.mit.edu	37	8	41611292	41611293	+	Intron	INS	-	CC	CC	rs145029672	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41611292_41611293insCC	uc003xok.2	-						NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Intron|ANK1_uc003xoj.2_Intron|ANK1_uc003xol.2_Intron|ANK1_uc003xom.2_Intron	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1						axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			TGTGACtctcgcccctacctgt	0.059													2	7	---	---	---	---	
C8orf40	114926	broad.mit.edu	37	8	42404166	42404166	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42404166delA	uc011lcv.1	+						C8orf40_uc003xph.2_Intron|C8orf40_uc003xpg.2_Intron|C8orf40_uc010lxo.2_Intron	NM_001135676	NP_001129148	Q96E16	CH040_HUMAN	hypothetical protein LOC114926							cytoplasm|integral to membrane|nucleolus					0	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			cattattcacaatagccaaaa	0.114													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	43828227	43828228	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:43828227_43828228insT								POTEA (609899 upstream) : None (None downstream)																							tatgctgaaaaaggaaatatct	0.000													4	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	47028946	47028946	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:47028946delC								None (None upstream) : BEYLA (723562 downstream)																							gacacaggcaccctgctccaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	68726759	68726759	+	IGR	DEL	A	-	-	rs71554615		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68726759delA								CPA6 (68139 upstream) : PREX2 (137589 downstream)																							aacaaaagccaaaaaaaaaaa	0.000													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	70833408	70833409	+	IGR	DEL	AA	-	-	rs35029452		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:70833408_70833409delAA								SLCO5A1 (86109 upstream) : PRDM14 (130616 downstream)																							cggaggtctcaaaaaaaaaaaa	0.000													4	2	---	---	---	---	
RGS22	26166	broad.mit.edu	37	8	101011387	101011387	+	Intron	DEL	A	-	-	rs35746502		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101011387delA	uc003yjb.1	-						RGS22_uc003yja.1_Intron|RGS22_uc003yjc.1_Intron	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22						negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			cccattccttaaaaaaaaaaa	0.015													4	2	---	---	---	---	
RGS22	26166	broad.mit.edu	37	8	101076179	101076181	+	In_Frame_Del	DEL	CTT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101076179_101076181delCTT	uc003yjb.1	-	8	1010_1012	c.815_817delAAG	c.(814-819)GAAGGA>GGA	p.E272del	RGS22_uc003yja.1_In_Frame_Del_p.E91del|RGS22_uc003yjc.1_In_Frame_Del_p.E260del|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	272	Poly-Glu.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			tcttcttctccttcttcttcttc	0.325													44	82	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	101142659	101142659	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101142659delG								RGS22 (24315 upstream) : FBXO43 (3001 downstream)																							ggcttatgatgggaggggctg	0.000													4	2	---	---	---	---	
RSPO2	340419	broad.mit.edu	37	8	109013980	109013980	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109013980delA	uc003yms.2	-						RSPO2_uc003ymq.2_Intron|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor						Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			TCAGTGAGGGAAAAAAAAAAT	0.279													4	2	---	---	---	---	
SYBU	55638	broad.mit.edu	37	8	110654748	110654748	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110654748delA	uc003ynj.3	-						SYBU_uc003yni.3_Intron|SYBU_uc003ynk.3_Intron|SYBU_uc010mco.2_Intron|SYBU_uc003ynl.3_Intron|SYBU_uc010mcp.2_Intron|SYBU_uc010mcq.2_Intron|SYBU_uc003yno.3_Intron|SYBU_uc010mcr.2_Intron|SYBU_uc003ynm.3_Intron|SYBU_uc003ynn.3_Intron|SYBU_uc010mcs.2_Intron|SYBU_uc010mct.2_Intron|SYBU_uc010mcu.2_Intron|SYBU_uc003ynp.3_Intron|SYBU_uc010mcv.2_Intron|uc003ynq.1_5'Flank	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein							cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						ATAACATATGAAAATTCAGGT	0.259													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	116274978	116274978	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:116274978delA								None (None upstream) : TRPS1 (145747 downstream)																							CCTTAATCAGAAAAAAAAAAA	0.328													2	4	---	---	---	---	
SLC30A8	169026	broad.mit.edu	37	8	118127136	118127137	+	Intron	DEL	CT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:118127136_118127137delCT	uc010mcz.2	+						SLC30A8_uc011lia.1_Intron|SLC30A8_uc003yog.2_Intron	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8						insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			ctcttctgtcctctctctctct	0.168													4	2	---	---	---	---	
NOV	4856	broad.mit.edu	37	8	120430194	120430195	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120430194_120430195insT	uc003yoq.2	+							NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor						regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AAGGACTTGGGTTTTGGAACAT	0.366													15	23	---	---	---	---	
TAF2	6873	broad.mit.edu	37	8	120793175	120793176	+	Intron	DEL	AA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120793175_120793176delAA	uc003you.2	-							NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2						G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			actctgtctcaaaaaaaaaaaa	0.114													4	2	---	---	---	---	
TATDN1	83940	broad.mit.edu	37	8	125509530	125509530	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125509530delT	uc003yrd.2	-						TATDN1_uc003yre.2_Intron|TATDN1_uc010mdm.2_Intron|TATDN1_uc003yrf.2_Intron	NM_032026	NP_114415	Q6P1N9	TATD1_HUMAN	TatD DNase domain containing 1 isoform a							nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding				0	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			tttcttcttcttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	132605082	132605082	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132605082delC								ADCY8 (552247 upstream) : EFR3A (311277 downstream)																							caggatcataccgttaaccta	0.000													4	2	---	---	---	---	
ST3GAL1	6482	broad.mit.edu	37	8	134559261	134559262	+	Intron	INS	-	G	G	rs72720281		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134559261_134559262insG	uc003yuk.2	-						ST3GAL1_uc003yum.2_Intron	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase						protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			aaaaaaaaaaaaaGACTTCATC	0.134													1	5	---	---	---	---	
COL22A1	169044	broad.mit.edu	37	8	139635225	139635225	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139635225delA	uc003yvd.2	-						COL22A1_uc011ljo.1_Intron	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1						cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GGAACCGATGAATCATCATGA	0.493										HNSCC(7;0.00092)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	142565338	142565339	+	IGR	INS	-	C	C	rs141126387		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142565338_142565339insC								FLJ43860 (48008 upstream) : MIR1302-7 (302264 downstream)																							tggaggtatgtcatggtgttgg	0.213													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	143966130	143966130	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:143966130delT								CYP11B1 (4894 upstream) : CYP11B2 (25845 downstream)																							gtgatacttcttttttttttt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	3042864	3042865	+	IGR	INS	-	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:3042864_3042865insG								KIAA0020 (198734 upstream) : RFX3 (181784 downstream)																							gtggaggaactggaaaacatcc	0.000													1	5	---	---	---	---	
CDKN2A	1029	broad.mit.edu	37	9	21974819	21974819	+	Frame_Shift_Del	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:21974819delG	uc003zpk.2	-	1	220	c.8delC	c.(7-9)CCGfs	p.P3fs	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_Frame_Shift_Del_p.P3fs|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Intron	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	3					cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(24)|p.P3_P11del(2)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CCCCGCCGCCGGCTCCATGCT	0.781		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			5	3	---	---	---	---	
TPM2	7169	broad.mit.edu	37	9	35688339	35688339	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35688339delA	uc003zxq.2	-						TPM2_uc003zxr.2_Intron|TPM2_uc003zxs.2_Intron|TPM2_uc010mkz.2_Intron|TPM2_uc011lpa.1_Intron	NM_213674	NP_998839	P07951	TPM2_HUMAN	tropomyosin 2 (beta) isoform 2						muscle filament sliding|regulation of ATPase activity	cytosol|muscle thin filament tropomyosin	actin binding|structural constituent of muscle			ovary(1)	1	all_epithelial(49;0.121)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GGTTCATCTTAAAACAATCCT	0.483													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	44890105	44890105	+	IGR	DEL	T	-	-	rs78386507		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:44890105delT								None (None upstream) : FAM27C (100131 downstream)																							CAAACCAAAATCGAGGTAAAT	0.507													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66456852	66456853	+	Intron	INS	-	AC	AC	rs140941453		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66456852_66456853insAC	uc010mng.1	-						uc004aeb.2_3'UTR|uc004aec.2_5'Flank					Homo sapiens cDNA, FLJ98602.																		ttacagacattgtatagaaaag	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66821222	66821223	+	IGR	DEL	CT	-	-	rs112498295		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66821222_66821223delCT								LOC442421 (318195 upstream) : AQP7P1 (433044 downstream)																							ttttgaaacactcttcttgtag	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66824120	66824123	+	IGR	DEL	TCTT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66824120_66824123delTCTT								LOC442421 (321093 upstream) : AQP7P1 (430144 downstream)																							tttgaaaaactctttctgtaggat	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	67340992	67340992	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:67340992delG								AQP7P1 (51500 upstream) : FAM27B (451938 downstream)																							gtgcggctgtgggggggggtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68366462	68366463	+	IGR	INS	-	A	A	rs144438619	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68366462_68366463insA								FAM27B (572273 upstream) : MIR1299 (635776 downstream)																							atacacctgggaaaagggtcac	0.045													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68390794	68390794	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68390794delT								FAM27B (596605 upstream) : MIR1299 (611445 downstream)																							gctgtcttcctttttgtctaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68478454	68478454	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68478454delC								FAM27B (684265 upstream) : MIR1299 (523785 downstream)																							TCTTTTTTTTCGTATTGATAA	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68491533	68491534	+	IGR	DEL	TC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68491533_68491534delTC								FAM27B (697344 upstream) : MIR1299 (510705 downstream)																							TATTCCtctttctctctttctt	0.089													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68995814	68995814	+	IGR	DEL	A	-	-	rs113710156		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68995814delA								None (None upstream) : MIR1299 (6425 downstream)																							aaagtataataaaaaaaaaga	0.010													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	69001402	69001403	+	IGR	INS	-	T	T	rs142560516		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69001402_69001403insT								None (None upstream) : MIR1299 (836 downstream)																							cagaacactgctgctggaatct	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	69818218	69818221	+	IGR	DEL	TGTT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69818218_69818221delTGTT								LOC100133920 (153269 upstream) : FOXD4L5 (357488 downstream)																							gggttctgagtgtttgtccctcac	0.000													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	69959332	69959332	+	IGR	DEL	T	-	-	rs141275947		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69959332delT								LOC100133920 (294383 upstream) : FOXD4L5 (216377 downstream)																							aggaaatatcttcacataaaa	0.000													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	70117457	70117458	+	IGR	INS	-	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:70117457_70117458insG								LOC100133920 (452508 upstream) : FOXD4L5 (58251 downstream)																							aagaaagaaaaaGAGAGAGAGA	0.074													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	70940393	70940394	+	IGR	DEL	GA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:70940393_70940394delGA								FOXD4L3 (20393 upstream) : LOC572558 (29717 downstream)																							tgatgataaggagagagtctgc	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	78080526	78080526	+	IGR	DEL	T	-	-	rs34720748		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:78080526delT								OSTF1 (318413 upstream) : PCSK5 (425034 downstream)																							TATGTAGGAATTTTGGGCATA	0.289													2	5	---	---	---	---	
PRUNE2	158471	broad.mit.edu	37	9	79244518	79244518	+	Intron	DEL	T	-	-	rs35411451		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79244518delT	uc010mpk.2	-						PRUNE2_uc011lsk.1_Intron|PRUNE2_uc011lsl.1_Intron|PRUNE2_uc011lsm.1_Intron|PRUNE2_uc004akj.3_Intron	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2						apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						cttcacatgcttttttttttt	0.020													4	2	---	---	---	---	
FRMD3	257019	broad.mit.edu	37	9	85977705	85977708	+	Intron	DEL	TCCT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:85977705_85977708delTCCT	uc004ams.1	-						FRMD3_uc004amr.1_Intron	NM_174938	NP_777598	A2A2Y4	FRMD3_HUMAN	FERM domain containing 3							cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2						tttccttccctccttccttccttt	0.078													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	87662927	87662927	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:87662927delT								NTRK2 (24422 upstream) : AGTPBP1 (498528 downstream)																							accctataccttttttttttt	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	90439460	90439460	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90439460delG								CTSL3 (37661 upstream) : C9orf79 (58281 downstream)																							TGGGTGCCAAGGCAGCGCCCA	0.682													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	90659962	90659965	+	Intron	DEL	ATCT	-	-	rs34849449		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90659962_90659965delATCT	uc004apv.1	-											full-length cDNA clone CS0DI004YC05 of Placenta Cot 25-normalized of Homo sapiens (human).																		AGATAAGATGatctatctatctat	0.255													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	90993654	90993654	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90993654delT								CDK20 (403987 upstream) : SPIN1 (9186 downstream)																							tctttctgtcttttttttttt	0.194													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	92723489	92723489	+	IGR	DEL	A	-	-	rs66992258		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:92723489delA								LOC100129066 (388815 upstream) : DIRAS2 (648625 downstream)																							TGTCTATGCTAAAAAAAGTCC	0.502													5	4	---	---	---	---	
SYK	6850	broad.mit.edu	37	9	93603550	93603551	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:93603550_93603551insT	uc004aqz.2	+						SYK_uc004aqy.2_Intron|SYK_uc004ara.2_Intron|SYK_uc004arb.2_Intron|SYK_uc004arc.2_Intron|SYK_uc011ltr.1_5'Flank|SYK_uc011lts.1_5'Flank|SYK_uc011ltt.1_5'Flank	NM_003177	NP_003168	P43405	KSYK_HUMAN	spleen tyrosine kinase isoform 1						cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						cagtgtgtgtgggtgtgtactg	0.000			T	ETV6|ITK	MDS|peripheral T-cell lymphoma								4	2	---	---	---	---	
PHF2	5253	broad.mit.edu	37	9	96345857	96345858	+	Intron	INS	-	T	T	rs34776405		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96345857_96345858insT	uc004aub.2	+						PHF2_uc011lug.1_Intron	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2						liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		tgttttcctaattttttttttt	0.000													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	100788639	100788640	+	IGR	INS	-	T	T	rs56300336		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100788639_100788640insT								ANP32B (10417 upstream) : NANS (19249 downstream)																							CAGGTTTCATCttttttttttt	0.243													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	106309042	106309043	+	IGR	INS	-	T	T	rs113807613		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:106309042_106309043insT								CYLC2 (528272 upstream) : SMC2 (547498 downstream)																							gcctggctaacttttttttttt	0.000													4	2	---	---	---	---	
FKTN	2218	broad.mit.edu	37	9	108383057	108383059	+	Intron	DEL	TAG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:108383057_108383059delTAG	uc004bcr.2	+						FKTN_uc011lvx.1_Intron|FKTN_uc004bcs.2_Intron|FKTN_uc011lvy.1_Intron|FKTN_uc010mtm.2_Intron	NM_001079802	NP_001073270	O75072	FKTN_HUMAN	fukutin						muscle organ development|negative regulation of cell proliferation|negative regulation of JNK cascade|nervous system development|regulation of protein glycosylation	cis-Golgi network|endoplasmic reticulum|extracellular space|Golgi membrane|integral to membrane|nucleus	transferase activity			breast(2)|ovary(1)	3						AATACTACTAtagtagtagtagt	0.163													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	110706466	110706466	+	IGR	DEL	G	-	-	rs34653936		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:110706466delG								KLF4 (454419 upstream) : ACTL7B (910405 downstream)																							tggaagttgagggcattttga	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	113117181	113117182	+	IGR	INS	-	AATGGAACCCTGG	AATGGAACCCTGG	rs149086353	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113117181_113117182insAATGGAACCCTGG								TXNDC8 (17056 upstream) : SVEP1 (10349 downstream)																							TGTGGAAGGGCACCTATTGGTC	0.356													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	114716927	114716927	+	IGR	DEL	T	-	-	rs67683646		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114716927delT								UGCG (21496 upstream) : SUSD1 (86135 downstream)																							ttttttttccttttttttttt	0.000													3	3	---	---	---	---	
KIAA1958	158405	broad.mit.edu	37	9	115263228	115263228	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115263228delA	uc004bgf.1	+						KIAA1958_uc011lwx.1_Intron	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405											skin(1)	1						ccatcgctacaaaaaaaaaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	117426660	117426662	+	IGR	DEL	CAA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117426660_117426662delCAA								C9orf91 (17964 upstream) : TNFSF15 (124951 downstream)																							agaagggaagcaaggcatacaat	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	118392763	118392764	+	IGR	DEL	AC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:118392763_118392764delAC								DEC1 (227840 upstream) : C9orf27 (257782 downstream)																							gcacacccatacacacacacac	0.292													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	124204990	124204991	+	IGR	INS	-	GT	GT	rs148747239	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:124204990_124204991insGT								STOM (72445 upstream) : GGTA1 (2278 downstream)																							AGATGGTTAAAgtgtgtgtgtg	0.203													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	124901145	124901145	+	IGR	DEL	G	-	-	rs5900508		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:124901145delG								TTLL11 (45260 upstream) : NDUFA8 (5195 downstream)																							aagaagaggtggggggggggc	0.000													4	2	---	---	---	---	
WDR34	89891	broad.mit.edu	37	9	131397627	131397627	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131397627delA	uc004bvq.1	-						WDR34_uc004bvs.1_Intron|WDR34_uc004bvr.1_Intron	NM_052844	NP_443076	Q96EX3	WDR34_HUMAN	WD repeat domain 34							cytoplasm				central_nervous_system(2)|skin(1)	3						CTCTTCCAGGAAAAAAAAAAA	0.622											OREG0019522	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	134970130	134970132	+	IGR	DEL	AGG	-	-	rs34060333		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134970130_134970132delAGG								MED27 (14877 upstream) : NTNG2 (67202 downstream)																							gagtttattaaggagaattgact	0.005													4	2	---	---	---	---	
C9orf96	169436	broad.mit.edu	37	9	136249341	136249347	+	Intron	DEL	GTGGCAA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136249341_136249347delGTGGCAA	uc004cdk.2	+						C9orf96_uc004cdl.2_Intron	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436								ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		GATGATGGAGGTggcaatgatggtggt	0.246													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	136376904	136376905	+	IGR	INS	-	GTGT	GTGT	rs138358549		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136376904_136376905insGTGT								SLC2A6 (32628 upstream) : TMEM8C (2854 downstream)																							tatatgtgcacgtgtgtatgtg	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	138385901	138385902	+	IGR	INS	-	C	C	rs142516116		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138385901_138385902insC								KIAA0649 (5162 upstream) : C9orf116 (1124 downstream)																							CATTTTTTTTTATTTATTTCAA	0.262													4	2	---	---	---	---	
UBAC1	10422	broad.mit.edu	37	9	138848022	138848023	+	Intron	INS	-	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138848022_138848023insG	uc004cgt.2	-						UBAC1_uc004cgs.1_Intron|UBAC1_uc004cgu.2_Intron	NM_016172	NP_057256	Q9BSL1	UBAC1_HUMAN	ubiquitin associated domain containing 1							Golgi apparatus|plasma membrane	protein binding			skin(2)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.1e-06)|Epithelial(140;7.79e-06)		GCAGCGCTCACGGGGGACCTGG	0.599													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	139059156	139059157	+	IGR	INS	-	A	A	rs149197929	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139059156_139059157insA								C9orf69 (48425 upstream) : LHX3 (28941 downstream)																							aacaaacaaacaaaaaaaaaac	0.000													4	2	---	---	---	---	
MAN1B1	11253	broad.mit.edu	37	9	139989030	139989030	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139989030delA	uc004cld.2	+						MAN1B1_uc004clc.2_Intron|MAN1B1_uc011meo.1_Intron|MAN1B1_uc011mep.1_Intron|MAN1B1_uc010ncc.2_Intron	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase						oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		catctctattaaaaaaaaaaa	0.030													4	2	---	---	---	---	
EXD3	54932	broad.mit.edu	37	9	140270483	140270486	+	Intron	DEL	CTTA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140270483_140270486delCTTA	uc004cmp.2	-						C9orf167_uc011mew.1_Intron|EXD3_uc010ncg.1_Intron|EXD3_uc004cmr.2_Intron|EXD3_uc004cms.2_Intron	NM_017820	NP_060290	Q8N9H8	MUT7_HUMAN	exonuclease 3'-5' domain containing 3						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						ttccccacttcttacttatttctt	0.049													2	4	---	---	---	---	
EXD3	54932	broad.mit.edu	37	9	140305252	140305252	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140305252delG	uc004cmp.2	-						C9orf167_uc011mew.1_Intron|EXD3_uc004cmr.2_Intron|EXD3_uc004cms.2_Intron|EXD3_uc004cmt.3_Intron	NM_017820	NP_060290	Q8N9H8	MUT7_HUMAN	exonuclease 3'-5' domain containing 3						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						GCGGGGGGCAGGGCGAGGGCT	0.711													4	2	---	---	---	---	
CACNA1B	774	broad.mit.edu	37	9	140779407	140779408	+	Intron	INS	-	T	T	rs5901125		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140779407_140779408insT	uc004cog.2	+						uc004cof.1_Intron	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,						membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	cctctcccctcttccccccccc	0.059													5	4	---	---	---	---	
DIP2C	22982	broad.mit.edu	37	10	702107	702108	+	Intron	DEL	TA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:702107_702108delTA	uc001ifp.2	-						C10orf108_uc001ifr.2_Intron	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C							nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		tcttctattctatgttacccta	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	1202297	1202297	+	IGR	DEL	C	-	-	rs67197380		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1202297delC								WDR37 (24060 upstream) : NCRNA00200 (3411 downstream)																							TGTGGCTCTGCCCCCCCACCC	0.721													4	2	---	---	---	---	
NCRNA00200	399706	broad.mit.edu	37	10	1205445	1205446	+	5'Flank	INS	-	GA	GA			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1205445_1205446insGA	uc010qag.1	+							NR_015376				Homo sapiens cDNA FLJ40354 fis, clone TESTI2033641.												0						AGCACAGGCAGGAGAGAGAGAG	0.594													5	3	---	---	---	---	
PFKP	5214	broad.mit.edu	37	10	3116025	3116026	+	Intron	INS	-	GTTC	GTTC			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3116025_3116026insGTTC	uc001igp.2	+						PFKP_uc001igq.2_Intron|PFKP_uc009xhr.2_Intron	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet						glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		GTGTtttttttgtttgtttgtt	0.208													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	3716387	3716388	+	Intron	INS	-	A	A	rs145398620		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3716387_3716388insA	uc001igy.1	+											Homo sapiens cDNA clone IMAGE:5278070.																		gactttgtctcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
AKR1C3	8644	broad.mit.edu	37	10	5087000	5087001	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5087000_5087001insT	uc001ihr.2	+							NM_003739	NP_003730	P42330	AK1C3_HUMAN	aldo-keto reductase family 1, member C3						prostaglandin metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (A-specific) activity|indanol dehydrogenase activity|prostaglandin-F synthase activity|testosterone 17-beta-dehydrogenase (NAD+) activity|testosterone 17-beta-dehydrogenase (NADP+) activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity			skin(1)	1					Dimethyl sulfoxide(DB01093)|NADH(DB00157)	ttgcatttgtctaatggctgta	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	5667190	5667190	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5667190delT								CALML3 (98965 upstream) : ASB13 (13630 downstream)																							ccgcaattacttttgcaccag	0.333													4	2	---	---	---	---	
DHTKD1	55526	broad.mit.edu	37	10	12141854	12141854	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:12141854delG	uc001ild.3	+							NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain						glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			gtagtgtagtggagccatctc	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	15476586	15476597	+	IGR	DEL	CACACACACACA	-	-	rs59743439		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15476586_15476597delCACACACACACA								FAM171A1 (63528 upstream) : ITGA8 (82491 downstream)																							ctctctctctcacacacacacacacacacaca	0.189													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	32396827	32396828	+	IGR	DEL	CA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:32396827_32396828delCA								KIF5B (51456 upstream) : EPC1 (161031 downstream)																							TTTTTTTAATCACACACACACA	0.297													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	35383166	35383167	+	IGR	INS	-	T	T	rs112549710		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:35383166_35383167insT								CUL2 (3620 upstream) : CREM (32634 downstream)																							gtcctcgataattttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	36578049	36578049	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:36578049delT								FZD8 (647687 upstream) : ANKRD30A (836736 downstream)																							catttgtccatttcttttcct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42641848	42641849	+	IGR	INS	-	CATTT	CATTT			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42641848_42641849insCATTT								None (None upstream) : LOC441666 (185466 downstream)																							tttcatttcagcgtttcatcat	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42654253	42654255	+	IGR	DEL	TAT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42654253_42654255delTAT								None (None upstream) : LOC441666 (173060 downstream)																							caaatttgcatattattactaat	0.034													4	2	---	---	---	---	
ANXA8	653145	broad.mit.edu	37	10	47021736	47021737	+	Intron	INS	-	GCT	GCT	rs144809679		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47021736_47021737insGCT	uc001jed.3	-									P13928	ANXA8_HUMAN	Homo sapiens cDNA FLJ58071 complete cds, highly similar to Annexin A8.						blood coagulation		calcium ion binding|calcium-dependent phospholipid binding			central_nervous_system(3)	3						tctatgatgcggagacaggaat	0.114													2	4	---	---	---	---	
SLC16A9	220963	broad.mit.edu	37	10	61444172	61444172	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61444172delA	uc010qig.1	-							NM_194298	NP_919274	Q7RTY1	MOT9_HUMAN	solute carrier family 16 (monocarboxylic acid						urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3						TCCTAAAGTGAAAAAAAAAAA	0.323													9	4	---	---	---	---	
RTKN2	219790	broad.mit.edu	37	10	63955208	63955208	+	3'UTR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:63955208delT	uc001jlw.2	-	12					RTKN2_uc009xpf.1_Intron|RTKN2_uc001jlv.2_3'UTR	NM_145307	NP_660350	Q8IZC4	RTKN2_HUMAN	rhotekin 2						signal transduction	intracellular					0	Prostate(12;0.0297)|all_hematologic(501;0.215)					TATTTTTAGATTTTTTTTTTA	0.149													4	2	---	---	---	---	
CTNNA3	29119	broad.mit.edu	37	10	68874467	68874468	+	Intron	INS	-	GT	GT	rs138281420	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:68874467_68874468insGT	uc009xpn.1	-						CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_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						GGTTCTTAAAGgtgtgtgtgtg	0.277													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	72792753	72792754	+	IGR	INS	-	GAT	GAT			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:72792753_72792754insGAT								PCBD1 (144212 upstream) : UNC5B (179544 downstream)																							atggtgataaagatgataatga	0.000													4	3	---	---	---	---	
UNC5B	219699	broad.mit.edu	37	10	72970337	72970338	+	5'Flank	DEL	GA	-	-	rs113145946	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:72970337_72970338delGA	uc001jro.2	+						UNC5B_uc001jrp.2_5'Flank	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor						apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						AGAGGTTGGGGAGAGAGAGAGA	0.515													4	2	---	---	---	---	
KCNMA1	3778	broad.mit.edu	37	10	78954545	78954545	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:78954545delC	uc001jxn.2	-						KCNMA1_uc001jxj.2_Intron|KCNMA1_uc009xrt.1_Intron|KCNMA1_uc001jxo.2_Intron|KCNMA1_uc001jxm.2_Intron|KCNMA1_uc001jxq.2_Intron	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium						cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	ACAAAGAGTACCAATGCTGAA	0.423													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	86535359	86535360	+	IGR	INS	-	TT	TT	rs138295367	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:86535359_86535360insTT								FAM190B (257083 upstream) : GRID1 (823952 downstream)																							cgctctttttctttttcttttt	0.000													2	4	---	---	---	---	
SORCS1	114815	broad.mit.edu	37	10	108912934	108912935	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:108912934_108912935insT	uc001kym.2	-						SORCS1_uc001kyl.2_Intron|SORCS1_uc009xxs.2_Intron|SORCS1_uc001kyn.1_Intron|SORCS1_uc001kyo.2_Intron	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a							integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CCTTCTCTCTGTTTTTTTTTTC	0.287													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	112885082	112885082	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:112885082delT								ADRA2A (44422 upstream) : None (None downstream)																							ttgctattccttttgcctgga	0.000													4	2	---	---	---	---	
NRAP	4892	broad.mit.edu	37	10	115351796	115351797	+	Intron	INS	-	T	T	rs140764029	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115351796_115351797insT	uc001laj.2	-						NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Intron|NRAP_uc001lal.3_Intron	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S							fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		AAGTAAAGCCCTTTTTTTTTTC	0.381													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	120373080	120373080	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:120373080delA								PRLHR (17920 upstream) : C10orf46 (60554 downstream)																							aacctaaactagaccttccta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	124967907	124967907	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124967907delC								BUB3 (43021 upstream) : GPR26 (457964 downstream)																							CTAGATATTACCACTGCTACC	0.318													4	2	---	---	---	---	
FANK1	92565	broad.mit.edu	37	10	127592169	127592170	+	Intron	INS	-	G	G	rs74316414		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127592169_127592170insG	uc001ljh.3	+						FANK1_uc010quk.1_Intron|FANK1_uc009yan.2_Intron	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains							cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				gaagctgaggcggggggactgc	0.198													5	3	---	---	---	---	
TUBGCP2	10844	broad.mit.edu	37	10	135096143	135096144	+	Intron	INS	-	CCCT	CCCT			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135096143_135096144insCCCT	uc001lmg.1	-						TUBGCP2_uc001lmf.1_Intron|TUBGCP2_uc010qvc.1_Intron|TUBGCP2_uc009ybk.1_Intron|TUBGCP2_uc010qvd.1_Intron|TUBGCP2_uc001lmh.1_Intron	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2						G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		CCTCCTCCGGACCCTCCCCATG	0.584													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	190063	190076	+	IGR	DEL	CCCCTGCTGGCAAC	-	-	rs111299836		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:190063_190076delCCCCTGCTGGCAAC								LOC100133161 (50911 upstream) : SCGB1C1 (3004 downstream)																							ggcagcacgacccctgctggcaaccagggcactg	0.000													4	3	---	---	---	---	
LRDD	55367	broad.mit.edu	37	11	808126	808127	+	5'Flank	INS	-	A	A	rs144227775	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:808126_808127insA	uc001lro.1	-						LRDD_uc001lrn.1_5'Flank|LRDD_uc001lrp.1_5'Flank|RPLP2_uc001lrq.1_5'Flank|RPLP2_uc001lrr.1_5'Flank	NM_145886	NP_665893	Q9HB75	PIDD_HUMAN	leucine rich repeat and death domain containing						apoptosis|signal transduction	cytoplasm|nucleus	death receptor binding				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		tttgggataataaaaaaAAAGT	0.025													3	3	---	---	---	---	
LSP1	4046	broad.mit.edu	37	11	1881511	1881525	+	Intron	DEL	GATGGATAATTGAAT	-	-	rs142889376	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1881511_1881525delGATGGATAATTGAAT	uc001lui.2	+						hsa-mir-4298|MI0015830_5'Flank	NM_002339	NP_002330	P33241	LSP1_HUMAN	lymphocyte-specific protein 1 isoform 1						cellular component movement|cellular defense response	actin cytoskeleton|Golgi apparatus|plasma membrane	actin binding|signal transducer activity			large_intestine(1)	1		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00147)|Lung(200;0.0729)|LUSC - Lung squamous cell carcinoma(625;0.0856)		atgatggatggatggataattgaatgatggatgga	0.093													4	3	---	---	---	---	
OSBPL5	114879	broad.mit.edu	37	11	3162337	3162338	+	Intron	INS	-	AAC	AAC	rs141700918	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3162337_3162338insAAC	uc001lxk.2	-						OSBPL5_uc009ydw.2_Intron|OSBPL5_uc001lxl.2_Intron|OSBPL5_uc009ydx.2_Intron	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform						cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		CTAACAACAGAAACAACGTCAA	0.554													3	3	---	---	---	---	
RHOG	391	broad.mit.edu	37	11	3861769	3861770	+	Intron	INS	-	A	A	rs139637189	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3861769_3861770insA	uc001lyu.2	-							NM_001665	NP_001656	P84095	RHOG_HUMAN	ras homolog gene family, member G precursor						actin cytoskeleton organization|activation of Rac GTPase activity|axon guidance|cell chemotaxis|platelet activation|positive regulation of cell proliferation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of transcription, DNA-dependent|Rac protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|protein binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0349)|LUSC - Lung squamous cell carcinoma(625;0.194)		TCTCAACACCCCCCCCACCAAC	0.619													2	4	---	---	---	---	
STIM1	6786	broad.mit.edu	37	11	3877114	3877118	+	5'UTR	DEL	TCTCT	-	-	rs3061890		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3877114_3877118delTCTCT	uc001lyv.2	+	1					STIM1_uc009yef.2_5'UTR	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor						activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		CCTTCTCGCCtctcttctcttctct	0.639													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	8218778	8218778	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:8218778delA								RIC3 (28188 upstream) : LMO1 (27079 downstream)																							CAGTCATGATAAAAAAAAAAA	0.423													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	11256963	11256963	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:11256963delT								ZBED5 (377343 upstream) : GALNTL4 (35458 downstream)																							attagcaccctcataaataag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	13163020	13163021	+	IGR	DEL	AG	-	-	rs141719686		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:13163020_13163021delAG								RASSF10 (130373 upstream) : ARNTL (136304 downstream)																							CACATTTTTCAGAGTGAGGCCA	0.465													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	15664637	15664637	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:15664637delA								INSC (395885 upstream) : SOX6 (323359 downstream)																							GTGCTTCCCTAAATCACCTTA	0.448													4	2	---	---	---	---	
PLEKHA7	144100	broad.mit.edu	37	11	16913954	16913955	+	Intron	DEL	TG	-	-	rs10524176		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:16913954_16913955delTG	uc001mmo.2	-						PLEKHA7_uc010rcu.1_Intron	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A						epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						TGTTTTATTTtgtgtgtgtgtg	0.238													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	19048232	19048232	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:19048232delA								MRGPRX1 (91683 upstream) : MRGPRX2 (27773 downstream)																							agatttgagcagggacacaca	0.129													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	19116734	19116734	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:19116734delC								MRGPRX2 (34506 upstream) : ZDHHC13 (21958 downstream)																							gcctaagcatcaggctttcca	0.025													4	2	---	---	---	---	
METT5D1	196074	broad.mit.edu	37	11	28302215	28302215	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:28302215delT	uc001msh.2	+						METT5D1_uc001msg.2_Intron|METT5D1_uc001mse.2_Intron	NM_001113528	NP_001107000	A6NJ78	MET15_HUMAN	methyltransferase 5 domain containing 1 isoform								methyltransferase activity				0						tctcttatgcttttttttttt	0.000													2	4	---	---	---	---	
LRRC4C	57689	broad.mit.edu	37	11	40771199	40771199	+	Intron	DEL	A	-	-	rs112673026		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:40771199delA	uc001mxc.1	-						LRRC4C_uc001mxd.1_Intron	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor						regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				aaaagagactaaaaaaaaaaa	0.000													2	4	---	---	---	---	
ACCS	84680	broad.mit.edu	37	11	44100588	44100612	+	Intron	DEL	TCATACAATCCTCACAACAATGCTA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44100588_44100612delTCATACAATCCTCACAACAATGCTA	uc009yks.1	+						EXT2_uc010rfo.1_Intron|ACCS_uc010rfm.1_3'UTR|ACCS_uc001mxx.2_Intron	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase								1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						tttatgtgcctcatacaatcctcacaacaatgctATCATACAATC	0.129													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	44707607	44707607	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44707607delC								CD82 (66294 upstream) : TSPAN18 (174272 downstream)																							agttgcgccgccccaatcatg	0.219													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	56473320	56473320	+	IGR	DEL	C	-	-	rs36139964		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56473320delC								OR9G9 (4541 upstream) : OR9G4 (36985 downstream)																							aaggataaaacttttgtgtga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	59455499	59455500	+	IGR	DEL	AT	-	-	rs11230048		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59455499_59455500delAT								PATL1 (18988 upstream) : OR10V1 (24889 downstream)																							acacacacacatacatacacac	0.361													2	6	---	---	---	---	
GIF	2694	broad.mit.edu	37	11	59611620	59611620	+	Intron	DEL	T	-	-	rs72085643		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59611620delT	uc001noi.2	-						GIF_uc010rkz.1_Intron	NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)						cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2						tctttctttcttttttttttg	0.194													4	3	---	---	---	---	
MS4A1	931	broad.mit.edu	37	11	60234751	60234751	+	Intron	DEL	T	-	-	rs72210319		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60234751delT	uc001npp.2	+						MS4A1_uc001npq.2_Intron|MS4A1_uc009yna.2_Intron|MS4A1_uc009ymz.2_Intron|MS4A1_uc010rlc.1_Intron	NM_152866	NP_690605	P11836	CD20_HUMAN	membrane-spanning 4-domains, subfamily A, member						B cell activation|immune response	integral to plasma membrane				ovary(3)|lung(2)	5					Ibritumomab(DB00078)|Rituximab(DB00073)|Tositumomab(DB00081)	TCTGTGCGTCttttttttttt	0.159													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	63389798	63389802	+	IGR	DEL	TTTGT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63389798_63389802delTTTGT								PLA2G16 (7857 upstream) : ATL3 (6635 downstream)																							TAATGGATTATTTGTTTTGGTCTGC	0.429													4	3	---	---	---	---	
DLG2	1740	broad.mit.edu	37	11	84483210	84483210	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:84483210delA	uc001paj.2	-						DLG2_uc010rsz.1_Intron|DLG2_uc010rta.1_Intron|DLG2_uc001pak.2_Intron|DLG2_uc001pal.1_Intron	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2							cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				aacaaaaaccaaaaaaaaaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	90076603	90076603	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:90076603delA								CHORDC1 (120071 upstream) : MIR1261 (525686 downstream)																							taaaacagtgaaaccttttgt	0.040													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	96240657	96240657	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:96240657delT								JRKL (113930 upstream) : None (None downstream)																							tctctgtgtctttttttaacc	0.050													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	96795870	96795871	+	IGR	INS	-	A	A	rs143674710	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:96795870_96795871insA								JRKL (669143 upstream) : None (None downstream)																							tatttagctataaaaaaaatga	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	103408252	103408253	+	IGR	DEL	CA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103408252_103408253delCA								DYNC2H1 (57661 upstream) : PDGFD (369662 downstream)																							AAAATGTGACCAGAAAAAAAAA	0.446													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	107128161	107128161	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107128161delC								GUCY1A2 (238990 upstream) : CWF19L2 (68913 downstream)																							aaggccccctcccaaaactgg	0.124													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	109218680	109218681	+	IGR	INS	-	CCCTT	CCCTT			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:109218680_109218681insCCCTT								DDX10 (407034 upstream) : C11orf87 (74194 downstream)																							tcccttccctccccttcccttg	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	110345114	110345115	+	IGR	INS	-	T	T	rs72316739		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110345114_110345115insT								FDX1 (9510 upstream) : ARHGAP20 (102651 downstream)																							AAGTTTTTCTCTTTTTTTTTTT	0.396													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	112146018	112146018	+	IGR	DEL	G	-	-	rs111803011		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:112146018delG								PTS (5341 upstream) : NCAM1 (685977 downstream)																							TCACACCTCTGGGGGGCTGTC	0.483													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	112477583	112477583	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:112477583delG								PTS (336906 upstream) : NCAM1 (354412 downstream)																							GGTCTGCTGCGGAAGTAATTA	0.378													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	116515908	116515908	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:116515908delG								None (None upstream) : BUD13 (102980 downstream)																							tcatcaggtagggggcagcag	0.000													3	3	---	---	---	---	
TMPRSS4	56649	broad.mit.edu	37	11	117953275	117953276	+	Intron	INS	-	A	A	rs35021503		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117953275_117953276insA	uc010rxo.1	+						TMPRSS4_uc010rxp.1_Intron|TMPRSS4_uc010rxq.1_Intron|TMPRSS4_uc010rxr.1_Intron|TMPRSS4_uc010rxs.1_Intron|TMPRSS4_uc009yzu.2_Intron|uc001prx.1_Intron|uc001pry.1_Intron|uc001prz.1_Intron|uc009yzs.1_Intron|uc001psa.1_Intron	NM_019894	NP_063947	Q9NRS4	TMPS4_HUMAN	transmembrane protease, serine 4 isoform 1						proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0431)|all_hematologic(192;0.164)|Breast(348;0.183)|all_neural(223;0.238)		BRCA - Breast invasive adenocarcinoma(274;4.16e-05)|Epithelial(105;0.00204)		gactcggtctcaaaaaaaaaga	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	131088770	131088771	+	IGR	INS	-	A	A	rs141287793	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:131088770_131088771insA								SNX19 (302388 upstream) : NTM (151600 downstream)																							gtcagagtgggatattgaaatg	0.000													4	3	---	---	---	---	
OPCML	4978	broad.mit.edu	37	11	132405313	132405313	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:132405313delA	uc001qgs.2	-						OPCML_uc001qgu.2_Intron|OPCML_uc010sck.1_Intron|OPCML_uc001qgt.2_Intron|OPCML_uc010scl.1_Intron	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion						cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		ACCTCATCTCAGCTGAGAGGC	0.522													2	4	---	---	---	---	
OPCML	4978	broad.mit.edu	37	11	132904203	132904204	+	Intron	INS	-	GT	GT	rs71477785		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:132904203_132904204insGT	uc001qgu.2	-							NM_001012393	NP_001012393	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion						cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		tgtatgtataggtgtgtgtgtg	0.376													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	134924643	134924644	+	IGR	INS	-	GT	GT	rs139959167	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134924643_134924644insGT								B3GAT1 (642831 upstream) : None (None downstream)																							cctccctgggcgtgtgtgtgtg	0.000													4	4	---	---	---	---	
WNK1	65125	broad.mit.edu	37	12	907358	907359	+	Intron	INS	-	T	T	rs112573663		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:907358_907359insT	uc001qio.3	+						WNK1_uc001qin.2_Intron|WNK1_uc001qip.3_Intron	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1						intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			ATTGCAttttcttttttttttt	0.168													5	3	---	---	---	---	
PARP11	57097	broad.mit.edu	37	12	3943957	3943959	+	Intron	DEL	GAG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3943957_3943959delGAG	uc001qml.2	-						PARP11_uc009zef.2_Intron|PARP11_uc001qmm.2_Intron|PARP11_uc001qmn.2_Intron	NM_020367	NP_065100	Q9NR21	PAR11_HUMAN	poly (ADP-ribose) polymerase family, member 11								NAD+ ADP-ribosyltransferase activity			ovary(1)|central_nervous_system(1)	2			all cancers(3;1.58e-07)|OV - Ovarian serous cystadenocarcinoma(31;0.00287)|GBM - Glioblastoma multiforme(3;0.0141)|COAD - Colon adenocarcinoma(12;0.0264)			ttagatcagaGAGGAGTCAGAAA	0.241													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	4889564	4889567	+	IGR	DEL	GAAG	-	-	rs139065341		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4889564_4889567delGAAG								GALNT8 (7672 upstream) : KCNA6 (28775 downstream)																							GTGGTGGGGTGAAGGTAGGTGTGG	0.525													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	4913702	4913703	+	IGR	INS	-	A	A	rs145369901	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4913702_4913703insA								GALNT8 (31810 upstream) : KCNA6 (4639 downstream)																							TTTTAGAACCTAGGGCAGAGGT	0.342													2	5	---	---	---	---	
VWF	7450	broad.mit.edu	37	12	6182036	6182037	+	Intron	INS	-	T	T	rs111252756		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6182036_6182037insT	uc001qnn.1	-						VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein						blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CTCTCAATAACttttttttttt	0.203													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	6369828	6369829	+	IGR	DEL	TT	-	-	rs112396856		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6369828_6369829delTT								CD9 (22401 upstream) : PLEKHG6 (49773 downstream)																							tgggtgaaactttttttttttt	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	6382417	6382418	+	IGR	INS	-	TT	TT	rs61678188		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6382417_6382418insTT								CD9 (34990 upstream) : PLEKHG6 (37184 downstream)																							gtgtgtgtgtgtgtgtgtgtgt	0.000													5	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	6542824	6542825	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6542824_6542825insT								LTBR (42092 upstream) : LOC678655 (5342 downstream)																							ttctttctttcttcctttcttt	0.010													4	2	---	---	---	---	
LOC642846	642846	broad.mit.edu	37	12	9460754	9460754	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9460754delC	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						ctcaggtcctccccgtggccc	0.000													5	4	---	---	---	---	
CLEC1B	51266	broad.mit.edu	37	12	10151244	10151253	+	Intron	DEL	TTTTGTTTTG	-	-	rs10525279		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10151244_10151253delTTTTGTTTTG	uc001qwu.2	-						CLEC1B_uc009zhd.2_Intron	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform						cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						TGTTTGTATTttttgttttgttttgttttg	0.319													6	3	---	---	---	---	
PRB4	5545	broad.mit.edu	37	12	11057613	11057614	+	Intron	INS	-	A	A	rs35998107		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11057613_11057614insA	uc001qzf.1	-						PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron	NM_002723	NP_002714	P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4							extracellular region				ovary(1)	1						atcaaaaagttaaaaaaaaaaa	0.000										HNSCC(22;0.051)			2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	12462654	12462654	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12462654delT								LRP6 (42843 upstream) : MANSC1 (19564 downstream)																							TTTGGTGGAAttttttttttt	0.219													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	12481919	12481920	+	IGR	DEL	CA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12481919_12481920delCA								LRP6 (62108 upstream) : MANSC1 (298 downstream)																							aagactctgtcacacacacaca	0.109													5	3	---	---	---	---	
GSG1	83445	broad.mit.edu	37	12	13241220	13241221	+	Intron	DEL	TG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:13241220_13241221delTG	uc001rbn.2	-						GSG1_uc001rbj.2_Intron|GSG1_uc001rbk.2_Intron|GSG1_uc001rbl.2_Intron|GSG1_uc001rbm.2_Intron|GSG1_uc001rbo.2_Intron|GSG1_uc001rbp.2_Intron|GSG1_uc001rbq.1_Intron	NM_001080555	NP_001074024	Q2KHT4	GSG1_HUMAN	germ cell associated 1 isoform 4							endoplasmic reticulum membrane|integral to membrane					0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		CTTGACTGACTGTAAATACTGT	0.381													6	8	---	---	---	---	
PTPRO	5800	broad.mit.edu	37	12	15718384	15718385	+	Intron	INS	-	TAAT	TAAT	rs146181413	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15718384_15718385insTAAT	uc001rcv.1	+						PTPRO_uc001rcw.1_Intron|PTPRO_uc001rcx.1_Intron|PTPRO_uc001rcy.1_Intron|PTPRO_uc001rcz.1_Intron|PTPRO_uc001rda.1_Intron	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				GTAAGGAAAAGTAAACAAACCT	0.257													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	15757650	15757651	+	IGR	INS	-	A	A	rs112501834		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15757650_15757651insA								PTPRO (7315 upstream) : EPS8 (15425 downstream)																							aaaactccgtcaaaaaaaaaaa	0.158													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	17852274	17852275	+	IGR	DEL	TG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:17852274_17852275delTG								None (None upstream) : RERGL (381529 downstream)																							gtgaaataactgaaattaagat	0.010													0	6	---	---	---	---	
PLEKHA5	54477	broad.mit.edu	37	12	19470643	19470644	+	Intron	INS	-	A	A	rs35597898		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19470643_19470644insA	uc001reb.2	+						PLEKHA5_uc010sie.1_Intron|PLEKHA5_uc001rea.2_Intron|PLEKHA5_uc009zin.2_Intron|PLEKHA5_uc010sif.1_Intron|PLEKHA5_uc010sig.1_Intron|PLEKHA5_uc010sih.1_Intron|PLEKHA5_uc001rec.1_Intron	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A								1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					AGACAGTTTATAAAAAAAAAAA	0.257													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	19548953	19548956	+	IGR	DEL	AAAC	-	-	rs10565475		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19548953_19548956delAAAC								PLEKHA5 (19622 upstream) : AEBP2 (43652 downstream)																							gaccctgtttaaacaaacaaacaa	0.162													7	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	19747551	19747554	+	IGR	DEL	AATT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19747551_19747554delAATT								AEBP2 (72378 upstream) : PDE3A (774643 downstream)																							TTGAAGGACAAATTAATTAACACC	0.299													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	19863364	19863366	+	IGR	DEL	TAT	-	-	rs139298402		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19863364_19863366delTAT								AEBP2 (188191 upstream) : PDE3A (658831 downstream)																							CAGAAGGCTGTATTATTATTATT	0.389													2	4	---	---	---	---	
PDE3A	5139	broad.mit.edu	37	12	20706079	20706080	+	Intron	INS	-	T	T	rs145227642		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20706079_20706080insT	uc001reh.1	+							NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A						lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	GTTTGTCTTCCttttttttttt	0.342													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	24735563	24735564	+	Intron	INS	-	A	A	rs34796623		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:24735563_24735564insA	uc001rgb.1	-											Homo sapiens cDNA FLJ32894 fis, clone TESTI2004994.																		aaagaaggggcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	24862991	24862992	+	IGR	INS	-	T	T	rs33959937		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:24862991_24862992insT								SOX5 (147611 upstream) : BCAT1 (101289 downstream)																							cctgagtcttcttttttttttt	0.000													3	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	24868686	24868686	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:24868686delC								SOX5 (153306 upstream) : BCAT1 (95595 downstream)																							ACCATTGCCTCCACTCAAGTT	0.408													4	2	---	---	---	---	
BCAT1	586	broad.mit.edu	37	12	25060970	25060970	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:25060970delT	uc001rgd.3	-						BCAT1_uc010siy.1_Intron|BCAT1_uc001rge.3_Intron	NM_005504	NP_005495	P54687	BCAT1_HUMAN	branched chain aminotransferase 1, cytosolic						branched chain family amino acid biosynthetic process|branched chain family amino acid catabolic process|cell proliferation|G1/S transition of mitotic cell cycle	cytosol	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			lung(1)|breast(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Ovarian(17;0.107)|Colorectal(261;0.196)				Gabapentin(DB00996)|L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|L-Valine(DB00161)|Pyridoxal Phosphate(DB00114)	CTCTCTAATATTTTAGAAAGC	0.368													4	2	---	---	---	---	
IFLTD1	160492	broad.mit.edu	37	12	25671431	25671431	+	Intron	DEL	T	-	-	rs62733061		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:25671431delT	uc001rgs.2	-						IFLTD1_uc001rgt.1_Intron|IFLTD1_uc010sji.1_Intron|IFLTD1_uc010sjj.1_Intron|IFLTD1_uc009zjc.2_Intron	NM_152590	NP_689803	Q8N9Z9	ILFT1_HUMAN	intermediate filament tail domain containing 1							intermediate filament	structural molecule activity			ovary(2)|central_nervous_system(1)	3	all_lung(3;2.75e-22)|Lung NSC(3;1.77e-21)|all_hematologic(7;0.00656)|Colorectal(261;0.0847)					ACAAAAAGTGTTTTTTCATTG	0.323													5	5	---	---	---	---	
BHLHE41	79365	broad.mit.edu	37	12	26277870	26277871	+	5'UTR	INS	-	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:26277870_26277871insC	uc001rhb.2	-	1						NM_030762	NP_110389	Q9C0J9	BHE41_HUMAN	basic helix-loop-helix domain containing, class						cell differentiation|cell proliferation|organ morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						AAGCAGTTGGTCCCCCCCCTCC	0.540													11	7	---	---	---	---	
ITPR2	3709	broad.mit.edu	37	12	26546938	26546939	+	Intron	INS	-	A	A	rs146378786	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:26546938_26546939insA	uc001rhg.2	-						ITPR2_uc009zjg.1_Intron	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2						activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					ATTATGAAAGCAAAAAAAAATG	0.243													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	27123162	27123167	+	IGR	DEL	AGGGTA	-	-	rs112936580		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:27123162_27123167delAGGGTA								FGFR1OP2 (4300 upstream) : TM7SF3 (1341 downstream)																							ATCAACAGTCAGGGTAATGTGTATTC	0.228													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	28203639	28203639	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:28203639delA								PTHLH (78723 upstream) : CCDC91 (128571 downstream)																							TTTCTACCTCAAAAAAAAAAT	0.483													6	4	---	---	---	---	
CCDC91	55297	broad.mit.edu	37	12	28390168	28390169	+	Intron	INS	-	AC	AC	rs61922966		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:28390168_28390169insAC	uc001rio.2	+									Q7Z6B0	CCD91_HUMAN	RecName: Full=Coiled-coil domain-containing protein 91; AltName: Full=GGA-binding partner; AltName: Full=p56 accessory protein;						protein transport	Golgi apparatus|membrane				central_nervous_system(1)	1	Acute lymphoblastic leukemia(23;0.00718)|all_hematologic(23;0.0113)|Lung SC(9;0.184)					GTATTacacatacacacacaca	0.134													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	30320113	30320114	+	IGR	INS	-	AC	AC	rs11050698		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:30320113_30320114insAC								TMTC1 (382421 upstream) : IPO8 (461809 downstream)																							CCTacatacatacacacacaca	0.218													7	5	---	---	---	---	
TSPAN11	441631	broad.mit.edu	37	12	31112549	31112550	+	Intron	INS	-	A	A	rs146716832	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31112549_31112550insA	uc010sju.1	+						TSPAN11_uc001rjp.2_Intron|TSPAN11_uc010sjv.1_Intron	NM_001080509	NP_001073978	A1L157	TSN11_HUMAN	tetraspanin 11							integral to membrane					0	all_lung(12;3.11e-10)|Lung NSC(12;5.24e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					TAAAACCCAGGAAAaaaaatac	0.149													3	6	---	---	---	---	
DDX11	1663	broad.mit.edu	37	12	31255056	31255056	+	Intron	DEL	C	-	-	rs145143657		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31255056delC	uc001rjt.1	+						DDX11_uc001rjr.1_Intron|DDX11_uc001rjs.1_Intron|DDX11_uc001rju.1_Intron|DDX11_uc001rjv.1_Intron|DDX11_uc001rjw.1_Intron|DDX11_uc009zjn.1_Intron|DDX11_uc009zjo.1_5'Flank	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11						G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					CAGAGGATTTCCCCCAAAGTC	0.607										Multiple Myeloma(12;0.14)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	31905813	31905814	+	IGR	INS	-	AAA	AAA	rs138461871	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31905813_31905814insAAA								AMN1 (23705 upstream) : H3F3C (38307 downstream)																							TGAAAGCaaagaaaaaaaaaat	0.020													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	32021205	32021205	+	IGR	DEL	T	-	-	rs111859353		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:32021205delT								H3F3C (76030 upstream) : C12orf35 (91148 downstream)																							ttcttttttcttttttttttt	0.134													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	32093073	32093084	+	IGR	DEL	AGAAAAAGAAAA	-	-	rs6144678		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:32093073_32093084delAGAAAAAGAAAA								H3F3C (147898 upstream) : C12orf35 (19269 downstream)																							actccgtctcagaaaaagaaaaagaaaaagaa	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	32802886	32802887	+	IGR	INS	-	AAAAAG	AAAAAG	rs75602071		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:32802886_32802887insAAAAAG								FGD4 (3904 upstream) : DNM1L (29250 downstream)																							aaaagaaaagaaaaaaaaaAAG	0.144													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	34856137	34856138	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:34856137_34856138insT								ALG10 (674903 upstream) : None (None downstream)																							agagtttaaccttttttttttg	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	38009248	38009248	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38009248delT								None (None upstream) : ALG10B (701309 downstream)																							tgaacttttcttttcatagag	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	38095518	38095518	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38095518delG								None (None upstream) : ALG10B (615039 downstream)																							ttccaccgtaggacgcaaagg	0.000													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	40978511	40978511	+	IGR	DEL	A	-	-	rs111719755		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:40978511delA								LRRK2 (215427 upstream) : CNTN1 (107847 downstream)																							TAAGGGATTTAAAGACACAAG	0.358													4	6	---	---	---	---	
CNTN1	1272	broad.mit.edu	37	12	41093560	41093561	+	Intron	INS	-	A	A	rs111410321		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41093560_41093561insA	uc001rmm.1	+						CNTN1_uc009zjy.1_Intron|CNTN1_uc001rmn.1_Intron	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor						axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				catttacagataaaaaaaaaaa	0.005													4	2	---	---	---	---	
PDZRN4	29951	broad.mit.edu	37	12	41798546	41798547	+	Intron	INS	-	A	A	rs35907714		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41798546_41798547insA	uc010skn.1	+							NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2								ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				caagctatactaaaaaaaaaaa	0.000													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	42211831	42211832	+	IGR	INS	-	AGTG	AGTG	rs143429591	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42211831_42211832insAGTG								PDZRN4 (243447 upstream) : GXYLT1 (263818 downstream)																							gctttcatgatagtgagttctc	0.000													6	3	---	---	---	---	
PPHLN1	51535	broad.mit.edu	37	12	42850200	42850201	+	Intron	INS	-	G	G	rs146725175	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42850200_42850201insG	uc010sku.1	+							NM_001143789	NP_001137261	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 8						keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		GGGATGGGCCAGGGTGGAAtga	0.218													3	5	---	---	---	---	
C1QL4	338761	broad.mit.edu	37	12	49731547	49731548	+	5'Flank	DEL	GA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49731547_49731548delGA	uc001rtz.1	-							NM_001008223	NP_001008224	Q86Z23	C1QL4_HUMAN	complement component 1, q subcomponent-like 4							collagen					0						tgtttgtgtggagagagagaga	0.337											OREG0021793	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	3	---	---	---	---	
SCN8A	6334	broad.mit.edu	37	12	52165217	52165218	+	Intron	INS	-	A	A	rs112882505		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52165217_52165218insA	uc001ryw.2	+						SCN8A_uc010snl.1_Intron	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha						axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	AATCTGGAAGCAAAAAAAAAAA	0.371													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	61738104	61738105	+	IGR	DEL	GT	-	-	rs58009735		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:61738104_61738105delGT								None (None upstream) : FAM19A2 (363938 downstream)																							TCATTGTATGgtgtgtgtgtgt	0.173													4	2	---	---	---	---	
FAM19A2	338811	broad.mit.edu	37	12	62142672	62142673	+	Intron	INS	-	TAT	TAT	rs146708553	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:62142672_62142673insTAT	uc001sqw.2	-						FAM19A2_uc001sqv.2_Intron|FAM19A2_uc001sqx.2_Intron|FAM19A2_uc001sqy.2_Intron	NM_178539	NP_848634	Q8N3H0	F19A2_HUMAN	family with sequence similarity 19 (chemokine							cytoplasm				ovary(1)	1			GBM - Glioblastoma multiforme(1;0.00484)	GBM - Glioblastoma multiforme(3;0.02)		TTATGCTATTCTATTGTTACAA	0.307													4	2	---	---	---	---	
DPY19L2	283417	broad.mit.edu	37	12	63995114	63995115	+	Intron	INS	-	TGT	TGT	rs147561427	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:63995114_63995115insTGT	uc001srp.1	-						DPY19L2_uc009zqk.1_Intron	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2						multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		TGAGGCTTCTGTGTTGTTGTTG	0.347													4	2	---	---	---	---	
C12orf56	115749	broad.mit.edu	37	12	64769849	64769850	+	Intron	INS	-	A	A	rs141024745	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64769849_64769850insA	uc001ssa.3	-						uc001srx.2_Intron	NM_001099676	NP_001093146	Q8IXR9	CL056_HUMAN	hypothetical protein LOC115749												0			GBM - Glioblastoma multiforme(3;0.000582)	GBM - Glioblastoma multiforme(28;0.0259)		tgagatgcaccaaaactgcaac	0.000													3	5	---	---	---	---	
NUP107	57122	broad.mit.edu	37	12	69134856	69134857	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69134856_69134857insA	uc001suf.2	+						NUP107_uc001sug.2_Intron|NUP107_uc010stj.1_Intron	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa						carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)			aaaaagaaaagaaaAAAAAAAG	0.114													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	81453064	81453064	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81453064delT								LIN7A (121370 upstream) : ACSS3 (18745 downstream)																							ttctgctagcttttgcattcg	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	82658484	82658486	+	IGR	DEL	GAG	-	-	rs147707543		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:82658484_82658486delGAG								PPFIA2 (505375 upstream) : CCDC59 (87604 downstream)																							gaaaaagaaagaggagaaggaga	0.143													5	5	---	---	---	---	
CRADD	8738	broad.mit.edu	37	12	94074665	94074665	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:94074665delT	uc001tda.2	+						CRADD_uc010sur.1_Intron|CRADD_uc010sus.1_Intron	NM_003805	NP_003796	P78560	CRADD_HUMAN	CASP2 and RIPK1 domain containing adaptor with						apoptosis|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|signal transduction	intracellular	death domain binding|protease binding|protein binding, bridging			ovary(1)	1						TATAATACCAttttttttttt	0.164													4	2	---	---	---	---	
CCDC41	51134	broad.mit.edu	37	12	94742760	94742761	+	Intron	INS	-	CTTT	CTTT	rs142139883	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:94742760_94742761insCTTT	uc001tdd.2	-						CCDC41_uc001tde.2_Intron|CCDC41_uc009zsw.1_Intron	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen												0						tgcagaaaatgctaagtgtttg	0.000													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	106092113	106092114	+	IGR	INS	-	G	G	rs141242046	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106092113_106092114insG								C12orf75 (326818 upstream) : NUAK1 (365011 downstream)																							ccccaccaattcaccaagttta	0.020													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	106601502	106601502	+	IGR	DEL	C	-	-	rs139471628		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106601502delC								NUAK1 (67691 upstream) : CKAP4 (30158 downstream)																							aaaattttctcccattctgta	0.000													2	4	---	---	---	---	
RFX4	5992	broad.mit.edu	37	12	107146226	107146227	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107146226_107146227insT	uc001tlr.2	+						RFX4_uc001tlt.2_Intron|RFX4_uc001tlv.2_Intron	NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c						transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						TCGCTAAACAGTTTTTTTTTTC	0.510													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	107330831	107330831	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107330831delA								RIC8B (47739 upstream) : C12orf23 (18713 downstream)																							ttCATAGCTTAAAAAAATATG	0.095													2	5	---	---	---	---	
DAO	1610	broad.mit.edu	37	12	109280994	109280995	+	Intron	INS	-	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109280994_109280995insG	uc001tnr.3	+						DAO_uc001tnq.3_Intron|DAO_uc009zvb.2_Intron|DAO_uc001tns.3_Intron	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase						glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						ATGGTTATGATGGGGCATCCTT	0.460													3	4	---	---	---	---	
SDS	10993	broad.mit.edu	37	12	113840310	113840323	+	Intron	DEL	CTGGTCTCGAACTC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113840310_113840323delCTGGTCTCGAACTC	uc001tvg.2	-						SDS_uc001tvh.1_Intron	NM_006843	NP_006834	P20132	SDHL_HUMAN	serine dehydratase						gluconeogenesis|L-serine catabolic process|pyruvate biosynthetic process	cytoplasm	L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|protein homodimerization activity|pyridoxal phosphate binding			pancreas(1)	1					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	attgggcaggctggtctcgaactcctgacctcaa	0.070													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	114019084	114019084	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:114019084delA								LHX5 (109207 upstream) : RBM19 (235459 downstream)																							CAGAAGTGAGAAATTGCAGAG	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	114080542	114080544	+	IGR	DEL	TCC	-	-	rs148115301	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:114080542_114080544delTCC								LHX5 (170665 upstream) : RBM19 (173999 downstream)																							cttctttccttccttccttcctc	0.074													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	116013371	116013372	+	IGR	INS	-	T	T	rs150131325		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116013371_116013372insT								TBX3 (891402 upstream) : MED13L (383011 downstream)																							tttctttttccttttttttttt	0.218													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	121140467	121140468	+	IGR	INS	-	AC	AC	rs150898308	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121140467_121140468insAC								MLEC (800 upstream) : UNC119B (7363 downstream)																							gacacacacatacacacacaca	0.015													3	4	---	---	---	---	
TMEM132B	114795	broad.mit.edu	37	12	125919379	125919380	+	Intron	INS	-	GT	GT	rs142154996	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:125919379_125919380insGT	uc001uhe.1	+							NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B							integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		cccctgaagtggtgtgtttctt	0.183													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	127316663	127316674	+	IGR	DEL	CTTCTCCTCCTC	-	-	rs143858361	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:127316663_127316674delCTTCTCCTCCTC								LOC100128554 (359333 upstream) : None (None downstream)																							tctcctccttcttctcctcctcctcctcctcc	0.028													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	131955557	131955561	+	IGR	DEL	TTATC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:131955557_131955561delTTATC								LOC116437 (258082 upstream) : SFRS8 (240074 downstream)																							CTGTGCTATATTATCTTAGAAAACA	0.410													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	132641346	132641346	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132641346delT								NOC4L (4360 upstream) : GALNT9 (39572 downstream)																							cacacaccactacacgccact	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	25555143	25555143	+	IGR	DEL	T	-	-	rs151326393		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25555143delT								TPTE2P1 (12536 upstream) : PABPC3 (115133 downstream)																							aggctaacagtttttttttta	0.000													3	3	---	---	---	---	
WASF3	10810	broad.mit.edu	37	13	27228065	27228068	+	Intron	DEL	CTAT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:27228065_27228068delCTAT	uc001uqv.2	+						WASF3_uc001uqw.2_Intron	NM_006646	NP_006637	Q9UPY6	WASF3_HUMAN	WAS protein family, member 3						actin filament polymerization	cytoplasm|cytoskeleton	actin binding			pancreas(1)	1	Colorectal(5;0.000247)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0114)|Epithelial(112;0.046)|OV - Ovarian serous cystadenocarcinoma(117;0.0547)|Lung(94;0.105)|LUSC - Lung squamous cell carcinoma(192;0.155)		cagccatcccctatctgtcttagc	0.000													0	6	---	---	---	---	
FLT3	2322	broad.mit.edu	37	13	28649938	28649939	+	Intron	INS	-	T	T	rs150509856		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28649938_28649939insT	uc001urw.2	-						FLT3_uc010aao.2_Intron|FLT3_uc010tdn.1_Intron	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor						positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	tctcttagcaattttttttttt	0.010			Mis|O		AML|ALL								3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	29520410	29520415	+	IGR	DEL	GTGTGT	-	-	rs113651479		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:29520410_29520415delGTGTGT								SLC46A3 (227260 upstream) : MTUS2 (78333 downstream)																							TTCtgtctgcgtgtgtgtgtgtgtgt	0.369													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	30177475	30177475	+	IGR	DEL	C	-	-	rs36050004		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:30177475delC								SLC7A1 (7650 upstream) : UBL3 (161071 downstream)																							atccttcaatccaaccaagtt	0.020													1	5	---	---	---	---	
HMGB1	3146	broad.mit.edu	37	13	31115126	31115127	+	Intron	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:31115126_31115127delGT	uc001usz.2	-							NM_002128	NP_002119	P09429	HMGB1_HUMAN	high-mobility group box 1						base-excision repair, DNA ligation|dendritic cell chemotaxis|DNA fragmentation involved in apoptotic nuclear change|DNA topological change|inflammatory response to antigenic stimulus|innate immune response|myeloid dendritic cell activation|negative regulation of RNA polymerase II transcriptional preinitiation complex assembly|neuron projection development|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of DNA binding|positive regulation of transcription from RNA polymerase II promoter|V(D)J recombination	cell surface|condensed chromosome|extracellular space|nucleolus|nucleoplasm	chemoattractant activity|cytokine activity|damaged DNA binding|DNA bending activity|double-stranded DNA binding|RAGE receptor binding|repressing transcription factor binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			ovary(1)	1		Lung SC(185;0.0257)		all cancers(112;0.072)|OV - Ovarian serous cystadenocarcinoma(117;0.177)|Lung(94;0.216)|GBM - Glioblastoma multiforme(144;0.232)		TCTCTTTTGGGTGTGTGTGTGT	0.376													3	3	---	---	---	---	
STARD13	90627	broad.mit.edu	37	13	33872136	33872136	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:33872136delC	uc001uux.2	-						STARD13_uc010abh.1_Intron	NM_052851	NP_443083	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		TTTCAAAATGCCTCTCAAATC	0.398													4	2	---	---	---	---	
NBEA	26960	broad.mit.edu	37	13	36146851	36146853	+	Intron	DEL	TTG	-	-	rs71993283		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36146851_36146853delTTG	uc001uvb.2	+						NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_Intron|NBEA_uc010teg.1_Intron	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin							cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CAAGTTGGGTttgttgttgttgt	0.207													4	3	---	---	---	---	
DCLK1	9201	broad.mit.edu	37	13	36518959	36518960	+	Intron	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36518959_36518960delGT	uc001uvf.2	-							NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1						cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		GTGTCCTGGGGTGTGTGTGTGT	0.376													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	39515125	39515126	+	IGR	INS	-	A	A	rs149495879	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:39515125_39515126insA								FREM2 (53860 upstream) : STOML3 (24937 downstream)																							ccaaaatatacaaaaaaatcac	0.000													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	42554092	42554092	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42554092delA								KIAA0564 (18871 upstream) : DGKH (60080 downstream)																							aagggaatcgaaaaaaatggg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	43186838	43186839	+	IGR	INS	-	T	T	rs147616903	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:43186838_43186839insT								TNFSF11 (4689 upstream) : C13orf30 (168847 downstream)																							ctccctgtgtgtttttttgtgt	0.005													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	46208874	46208877	+	IGR	DEL	AAAG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46208874_46208877delAAAG								FAM194B (19000 upstream) : SPERT (67569 downstream)																							AGGCAAAGGCAAAGAAAGAAAGAA	0.319													4	2	---	---	---	---	
ZC3H13	23091	broad.mit.edu	37	13	46576420	46576420	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46576420delG	uc010tfw.1	-						ZC3H13_uc001vas.1_Intron|ZC3H13_uc001vat.1_Intron	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13								nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|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;4.18e-05)		gtgaaggtatggagaaactgg	0.000													4	2	---	---	---	---	
LRCH1	23143	broad.mit.edu	37	13	47279680	47279681	+	Intron	INS	-	T	T	rs146461842	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:47279680_47279681insT	uc001vbj.2	+						LRCH1_uc010acp.2_3'UTR|LRCH1_uc001vbk.2_Intron|LRCH1_uc001vbl.3_Intron	NM_015116	NP_055931	Q9Y2L9	LRCH1_HUMAN	leucine-rich repeats and calponin homology (CH)											ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)		GATTCTGTAGATTTTTTTACCT	0.396													2	5	---	---	---	---	
EBPL	84650	broad.mit.edu	37	13	50239852	50239852	+	Intron	DEL	T	-	-	rs35993290		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50239852delT	uc001vdg.2	-						EBPL_uc001vdh.2_Intron|EBPL_uc001vdi.2_Intron	NM_032565	NP_115954	Q9BY08	EBPL_HUMAN	emopamil binding related protein, delta8-delta7						sterol metabolic process	endoplasmic reticulum membrane|integral to membrane	cholestenol delta-isomerase activity				0		Lung NSC(96;0.000468)|Breast(56;0.0011)|Prostate(109;0.00243)|Hepatocellular(98;0.0556)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.06e-09)		TCAACAAGTCTTTTTTTTTTT	0.234													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	57138120	57138120	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:57138120delT								None (None upstream) : PRR20C (576932 downstream)																							gcttttgatgttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	61306080	61306081	+	IGR	INS	-	GA	GA	rs138329439	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61306080_61306081insGA								TDRD3 (158068 upstream) : PCDH20 (677740 downstream)																							ACAGAGGGAGGGAGAGAAGAAA	0.381													0	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	63633384	63633385	+	IGR	DEL	TT	-	-	rs72302550		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:63633384_63633385delTT								None (None upstream) : OR7E156P (678183 downstream)																							TGCTGAACTCTTTGTGCATAAA	0.287													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	66794411	66794411	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:66794411delA								None (None upstream) : PCDH9 (82556 downstream)																							aaattaaGGGAAAAAAAAACC	0.498													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	98505045	98505047	+	IGR	DEL	GAT	-	-	rs34544811		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:98505045_98505047delGAT								RAP2A (384794 upstream) : IPO5 (100882 downstream)																							tggatggatagatggttagatga	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	114073353	114073353	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:114073353delC								GRTP1 (54890 upstream) : ADPRHL1 (2907 downstream)																							cccttcccctccccttccctt	0.095													3	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	19161882	19161882	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:19161882delT								None (None upstream) : OR11H12 (215712 downstream)																							tacaagattcttcttcagtgg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	19773174	19773175	+	IGR	INS	-	G	G	rs112931203		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:19773174_19773175insG								POTEG (188232 upstream) : P704P (210779 downstream)																							atttggaaggagtttttttttt	0.000													4	2	---	---	---	---	
LRRC16B	90668	broad.mit.edu	37	14	24534457	24534457	+	Frame_Shift_Del	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24534457delG	uc001wlj.2	+	33	3528	c.3371delG	c.(3370-3372)CGGfs	p.R1124fs	LRRC16B_uc001wlk.2_Frame_Shift_Del_p.R220fs	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	1124										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		GGTGGGGGCCGGGGACCTTCC	0.637													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	36625656	36625656	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:36625656delT								BRMS1L (284488 upstream) : MBIP (142108 downstream)																							TTCCTttttctttttcaaatt	0.169													1	5	---	---	---	---	
SLC25A21	89874	broad.mit.edu	37	14	37209827	37209828	+	Intron	INS	-	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:37209827_37209828insC	uc001wtz.1	-							NM_030631	NP_085134	Q9BQT8	ODC_HUMAN	solute carrier family 25 (mitochondrial						lysine catabolic process	integral to membrane|mitochondrial inner membrane	alpha-ketoglutarate transmembrane transporter activity|binding			skin(1)	1	Esophageal squamous(585;0.164)|Breast(36;0.179)|Hepatocellular(127;0.213)		Lung(8;2.16e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.0112)|all cancers(34;0.0274)|LUSC - Lung squamous cell carcinoma(13;0.149)	GBM - Glioblastoma multiforme(112;0.00204)		CCCTCATTCAACCCCCCCACCC	0.416													0	6	---	---	---	---	
LRFN5	145581	broad.mit.edu	37	14	42112914	42112915	+	Intron	INS	-	CA	CA	rs149767883	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:42112914_42112915insCA	uc001wvm.2	+							NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III							integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		cataaacacaccacacacacac	0.297										HNSCC(30;0.082)			2	4	---	---	---	---	
SYNE2	23224	broad.mit.edu	37	14	64656682	64656683	+	Intron	INS	-	T	T	rs35676590		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64656682_64656683insT	uc001xgm.2	+						SYNE2_uc001xgl.2_Intron|SYNE2_uc010apy.2_Intron|SYNE2_uc001xgn.2_Intron|SYNE2_uc001xgo.2_Intron|SYNE2_uc010aqa.2_Intron|SYNE2_uc001xgq.2_Intron	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2						centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		tgcctggccaattttttttttt	0.168													7	4	---	---	---	---	
DCAF5	8816	broad.mit.edu	37	14	69532855	69532855	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69532855delT	uc001xkp.2	-						DCAF5_uc001xkq.2_Intron	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22							CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						GCTGACACTGttttttttttt	0.209													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	72285970	72285971	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:72285970_72285971insT								SIPA1L1 (79852 upstream) : RGS6 (113185 downstream)																							cctctcctttctttttttgacg	0.109													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	80652865	80652865	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:80652865delA								NRXN3 (322107 upstream) : DIO2 (11005 downstream)																							TAACAAAGGTAACCTATGAGG	0.393													4	2	---	---	---	---	
TSHR	7253	broad.mit.edu	37	14	81596854	81596856	+	Intron	DEL	TCT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81596854_81596856delTCT	uc001xvd.1	+							NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1						cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	tttttctagctcttcttcttctt	0.000			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						4	2	---	---	---	---	
TRIP11	9321	broad.mit.edu	37	14	92476877	92476878	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:92476877_92476878insA	uc001xzy.2	-						TRIP11_uc010auf.1_Intron	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11						transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		tccatctcattaaaaaaaaaaa	0.183			T	PDGFRB	AML								4	3	---	---	---	---	
SERPINA13	388007	broad.mit.edu	37	14	95104847	95104848	+	5'Flank	DEL	AC	-	-	rs66810633		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95104847_95104848delAC	uc001ydt.2	+							NR_015340				RecName: Full=Serpin A13; Flags: Precursor;											lung(1)|skin(1)	2						acacacacctacacacacacac	0.396													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	99098073	99098074	+	IGR	INS	-	T	T	rs149319834	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:99098073_99098074insT								C14orf64 (653612 upstream) : C14orf177 (79876 downstream)																							caaaacgactatttttttttat	0.000													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	99268697	99268697	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:99268697delG								C14orf177 (84600 upstream) : BCL11B (366930 downstream)																							TGCAGGGGCAGGGGGACTGCT	0.547													4	2	---	---	---	---	
DYNC1H1	1778	broad.mit.edu	37	14	102480972	102480972	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102480972delG	uc001yks.2	+						DYNC1H1_uc001ykt.1_5'Flank	NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1						cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						AGTCACTGCTGACATCACACT	0.532													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	104526003	104526003	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:104526003delT								TDRD9 (7001 upstream) : ASPG (26045 downstream)																							cagttgttcattgctgtaata	0.000													4	2	---	---	---	---	
TMEM121	80757	broad.mit.edu	37	14	105990324	105990325	+	5'Flank	INS	-	TG	TG	rs147672768	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105990324_105990325insTG	uc001yrp.1	+							NM_025268	NP_079544	Q9BTD3	TM121_HUMAN	hole protein							integral to membrane					0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0188)	Epithelial(152;0.0959)|all cancers(159;0.235)		taccctgctaatgtgtgtgtgt	0.000													4	2	---	---	---	---	
ADAM6	8755	broad.mit.edu	37	14	106807241	106807241	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106807241delT	uc010tyt.1	-						uc001ysw.1_5'Flank					Parts of antibodies, mostly variable regions.												0						ATACATCAAATTTTTGATGTT	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20061212	20061213	+	IGR	DEL	AT	-	-	rs148605021		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20061212_20061213delAT								None (None upstream) : GOLGA6L6 (675881 downstream)																							aaatgaaaacatgtgcatacaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20111580	20111580	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20111580delG								None (None upstream) : GOLGA6L6 (625514 downstream)																							gatttgttttgttttgttttg	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20113877	20113877	+	IGR	DEL	T	-	-	rs79009544		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20113877delT								None (None upstream) : GOLGA6L6 (623217 downstream)																							tttaaatatctttttGTTTCA	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20138520	20138521	+	IGR	INS	-	AGG	AGG			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20138520_20138521insAGG								None (None upstream) : GOLGA6L6 (598573 downstream)																							ggaagggagaaaggcaggaagg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20508652	20508653	+	IGR	INS	-	TGGCCC	TGGCCC	rs151093530	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20508652_20508653insTGGCCC								None (None upstream) : GOLGA6L6 (228441 downstream)																							GGCCATGGCCATGgccctggcc	0.317													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20541681	20541682	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20541681_20541682insT								None (None upstream) : GOLGA6L6 (195412 downstream)																							ggtaaagttcctttttgtttgt	0.015													4	2	---	---	---	---	
BCL8	606	broad.mit.edu	37	15	20871163	20871164	+	RNA	INS	-	AA	AA	rs142973274		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20871163_20871164insAA	uc010tzd.1	-	4		c.1923_1924insTT								Homo sapiens mRNA; cDNA DKFZp686P1536 (from clone DKFZp686P1536).												0						CTTATAGAGCCAGAGGCAAGTG	0.550													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	22033750	22033750	+	IGR	DEL	C	-	-	rs145767868	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22033750delC								CXADRP2 (16872 upstream) : LOC727924 (244282 downstream)																							acaagaaagacaagaaagaaa	0.035													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	22698546	22698546	+	IGR	DEL	A	-	-	rs76288056		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22698546delA								MIR1268 (185266 upstream) : GOLGA8DP (3739 downstream)																							TATTATTGACAAAAAAAAAAA	0.393													4	2	---	---	---	---	
UBE3A	7337	broad.mit.edu	37	15	25644722	25644725	+	Intron	DEL	TTTT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25644722_25644725delTTTT	uc001zaq.2	-						UBE3A_uc001zar.2_Intron|UBE3A_uc001zas.2_Intron|UBE3A_uc001zat.2_Intron	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2						brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		tttttgtttcttttgtttttaaaa	0.000													1	5	---	---	---	---	
FMN1	342184	broad.mit.edu	37	15	33357479	33357481	+	Intron	DEL	ACA	-	-	rs35328525		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33357479_33357481delACA	uc001zhf.3	-						FMN1_uc001zhg.2_Intron	NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1						actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		ATTTAAAACTACAACAACAAAAA	0.305													3	3	---	---	---	---	
RYR3	6263	broad.mit.edu	37	15	33715859	33715860	+	Intron	INS	-	G	G	rs142794176	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33715859_33715860insG	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)		attttccaggttttttttttaa	0.074													4	3	---	---	---	---	
RYR3	6263	broad.mit.edu	37	15	33795012	33795012	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33795012delA	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)		caggcgacctaaactcactgt	0.030													4	2	---	---	---	---	
FSIP1	161835	broad.mit.edu	37	15	40036978	40036979	+	Intron	INS	-	CACA	CACA	rs34564982		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40036978_40036979insCACA	uc001zki.2	-							NM_152597	NP_689810	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1											ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		tCCCCCTCAGTcacacacacac	0.163													4	2	---	---	---	---	
PDIA3	2923	broad.mit.edu	37	15	44058333	44058333	+	Intron	DEL	A	-	-	rs34486889		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44058333delA	uc001zsu.2	+						PDIA3_uc010bdp.2_Intron|PDIA3_uc010ued.1_Intron	NM_005313	NP_005304	P30101	PDIA3_HUMAN	protein disulfide-isomerase A3 precursor						cell redox homeostasis|glycerol ether metabolic process|post-translational protein modification|protein folding|protein import into nucleus|protein N-linked glycosylation via asparagine|protein retention in ER lumen|signal transduction	endoplasmic reticulum lumen|melanosome	cysteine-type endopeptidase activity|electron carrier activity|phospholipase C activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)|skin(1)	2		all_cancers(109;2.61e-15)|all_epithelial(112;1.12e-12)|Lung NSC(122;2.17e-08)|all_lung(180;2.45e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.48e-07)		AAGAAGAGGtaaaaaaaaaaa	0.318													7	4	---	---	---	---	
CTDSPL2	51496	broad.mit.edu	37	15	44720316	44720316	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44720316delT	uc001ztr.2	+						CTDSPL2_uc001zts.2_Intron|CTDSPL2_uc001ztt.2_Intron	NM_016396	NP_057480	Q05D32	CTSL2_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,								phosphoprotein phosphatase activity				0		all_cancers(109;4.36e-14)|all_epithelial(112;9.8e-12)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.0122)		all cancers(107;1.02e-20)|GBM - Glioblastoma multiforme(94;1.49e-06)|COAD - Colon adenocarcinoma(120;0.0857)|Colorectal(105;0.0905)		GAAGTTTAGCTTTTTTTAACC	0.428													3	4	---	---	---	---	
SORD	6652	broad.mit.edu	37	15	45323011	45323022	+	Intron	DEL	CCTGGTGAGGAC	-	-	rs71967134		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45323011_45323022delCCTGGTGAGGAC	uc001zul.3	+						SORD_uc010uel.1_Intron|SORD_uc001zum.3_Intron|SORD_uc010bdz.2_Intron	NM_003104	NP_003095	Q00796	DHSO_HUMAN	sorbitol dehydrogenase						fructose biosynthetic process|glucose metabolic process|L-xylitol catabolic process|sorbitol catabolic process|sperm motility	cilium|extracellular space|flagellum|membrane fraction|mitochondrial membrane|soluble fraction	L-iditol 2-dehydrogenase activity|NAD binding|sugar binding|zinc ion binding				0		all_cancers(109;3.43e-12)|all_epithelial(112;2.33e-10)|Lung NSC(122;6.01e-07)|all_lung(180;4.38e-06)|Melanoma(134;0.0122)		all cancers(107;1.6e-18)|GBM - Glioblastoma multiforme(94;4.95e-07)|COAD - Colon adenocarcinoma(120;0.0704)|Colorectal(133;0.0706)	NADH(DB00157)	acctctccagcctggtgaggacaggggaggct	0.245													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	46698893	46698894	+	IGR	INS	-	TG	TG	rs145579861	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:46698893_46698894insTG								SQRDL (715415 upstream) : SEMA6D (777509 downstream)																							gtgtgtgtgtatgtgtgtgtgt	0.337													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	47386981	47386981	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:47386981delC								None (None upstream) : SEMA6D (89422 downstream)																							agagtgattacatcaagataa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	50013908	50013908	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:50013908delA								DTWD1 (76576 upstream) : ATP8B4 (136528 downstream)																							TGAGCATGAGAGGCACTCTCA	0.398													4	2	---	---	---	---	
USP50	373509	broad.mit.edu	37	15	50817089	50817090	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:50817089_50817090insA	uc001zyq.3	-							NM_203494	NP_987090	E9PP86	E9PP86_HUMAN	ubiquitin specific protease 50						ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			lung(1)|breast(1)	2				all cancers(107;0.000519)|GBM - Glioblastoma multiforme(94;0.00288)		ataacatcaacaaaaaaaaaac	0.000													4	2	---	---	---	---	
CYP19A1	1588	broad.mit.edu	37	15	51575097	51575098	+	Intron	INS	-	GGT	GGT	rs147834386	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51575097_51575098insGGT	uc001zyz.3	-						CYP19A1_uc001zza.3_Intron|CYP19A1_uc001zzb.2_Intron|CYP19A1_uc010bey.1_Intron|CYP19A1_uc001zze.1_Intron	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19						estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	tattatgaagagtgggggtgaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	52592530	52592535	+	IGR	DEL	TTGTTG	-	-	rs143196980		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52592530_52592535delTTGTTG								MYO5C (4560 upstream) : MYO5A (6945 downstream)																							gtgcctgTTTTTGTTGTTGTTGTTgt	0.019													3	3	---	---	---	---	
RAB27A	5873	broad.mit.edu	37	15	55557448	55557449	+	Intron	INS	-	AAG	AAG	rs144619050	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:55557448_55557449insAAG	uc002aco.2	-						RAB27A_uc002acr.2_Intron|RAB27A_uc002acp.2_Intron|RAB27A_uc002acq.2_Intron	NM_183234	NP_899057	P51159	RB27A_HUMAN	Ras-related protein Rab-27A						small GTPase mediated signal transduction	dendrite|exocytic vesicle|late endosome|lysosome|melanosome	GTP binding|GTPase activity			ovary(1)	1				all cancers(107;0.0273)|GBM - Glioblastoma multiforme(80;0.0993)		tcaaagaaaaaaagaagaagaa	0.228													4	2	---	---	---	---	
RFX7	64864	broad.mit.edu	37	15	56433482	56433487	+	Intron	DEL	GTGGGA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:56433482_56433487delGTGGGA	uc010bfn.2	-							NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2						regulation of transcription, DNA-dependent	nucleus	DNA binding				0						gggggtgggggtgggagtgggagtta	0.000													4	2	---	---	---	---	
CGNL1	84952	broad.mit.edu	37	15	57756272	57756272	+	Intron	DEL	T	-	-	rs72136635		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:57756272delT	uc002aeg.2	+						CGNL1_uc010bfw.2_Intron	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1							myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		acttttgtccttttttttttt	0.015													4	2	---	---	---	---	
MYO1E	4643	broad.mit.edu	37	15	59605911	59605911	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59605911delA	uc002aga.2	-							NM_004998	NP_004989	Q12965	MYO1E_HUMAN	myosin IE						actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)		GCCCCTTGTTAAGTAAACTAG	0.443													4	2	---	---	---	---	
ANXA2	302	broad.mit.edu	37	15	60649686	60649686	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60649686delT	uc002agn.2	-						ANXA2_uc002agk.2_Intron|ANXA2_uc002agl.2_Intron|ANXA2_uc002agm.2_Intron|ANXA2_uc010uhd.1_Intron|ANXA2_uc010bgj.2_Intron	NM_001136015	NP_001129487	P07355	ANXA2_HUMAN	annexin A2 isoform 2						angiogenesis|positive regulation of vesicle fusion|skeletal system development	basement membrane|melanosome|midbody|soluble fraction	calcium ion binding|calcium-dependent phospholipid binding|cytoskeletal protein binding|phospholipase inhibitor activity			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Tenecteplase(DB00031)	GTTAATATGGTTTTTTTTTTT	0.219													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	63366483	63366484	+	IGR	INS	-	TTG	TTG	rs150600326	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63366483_63366484insTTG								TPM1 (2372 upstream) : LACTB (47548 downstream)																							TACAGTTTGTTTTGTTGTTGTT	0.218													2	4	---	---	---	---	
CSNK1G1	53944	broad.mit.edu	37	15	64521726	64521727	+	Intron	DEL	TT	-	-	rs141735233	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64521726_64521727delTT	uc002anf.2	-						CSNK1G1_uc002ane.2_Intron|CSNK1G1_uc002ang.1_Intron|CSNK1G1_uc002anh.1_Intron|CSNK1G1_uc002anj.2_Intron	NM_022048	NP_071331	Q9HCP0	KC1G1_HUMAN	casein kinase 1, gamma 1						Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0						tctctctctctttctctctctc	0.000													2	5	---	---	---	---	
ANKDD1A	348094	broad.mit.edu	37	15	65244218	65244218	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65244218delT	uc002aoa.2	+						ANKDD1A_uc002aoc.2_Intron|ANKDD1A_uc010bha.2_Intron	NM_182703	NP_874362	Q495B1	AKD1A_HUMAN	ankyrin repeat and death domain containing 1A						signal transduction					ovary(1)	1						ctcttcttcctttcttctctt	0.000													4	2	---	---	---	---	
ANKDD1A	348094	broad.mit.edu	37	15	65245210	65245212	+	Intron	DEL	CTC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65245210_65245212delCTC	uc002aoa.2	+						ANKDD1A_uc002aoc.2_Intron|ANKDD1A_uc010bha.2_Intron	NM_182703	NP_874362	Q495B1	AKD1A_HUMAN	ankyrin repeat and death domain containing 1A						signal transduction					ovary(1)	1						ctccttccttctcttcttctcct	0.000													3	3	---	---	---	---	
MAP2K5	5607	broad.mit.edu	37	15	68080652	68080652	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:68080652delT	uc002aqu.2	+						MAP2K5_uc002aqv.2_Intron|MAP2K5_uc002aqw.2_Intron|MAP2K5_uc002aqx.2_Intron	NM_145160	NP_660143	Q13163	MP2K5_HUMAN	mitogen-activated protein kinase kinase 5						nerve growth factor receptor signaling pathway		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)	2						GTCAGCAGCCTTTTGTCCTGC	0.478													4	2	---	---	---	---	
CORO2B	10391	broad.mit.edu	37	15	69001019	69001020	+	Intron	INS	-	T	T	rs149417380	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69001019_69001020insT	uc002arj.3	+						CORO2B_uc010bic.2_Intron	NM_006091	NP_006082	Q9UQ03	COR2B_HUMAN	coronin, actin binding protein, 2B						actin cytoskeleton organization	actin cytoskeleton|cytoplasm|membrane	actin filament binding			ovary(3)|skin(2)|large_intestine(1)	6						GGCtttcttcctttttttttta	0.035													3	3	---	---	---	---	
TMEM84	283673	broad.mit.edu	37	15	69382421	69382421	+	Intron	DEL	G	-	-	rs112331846		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69382421delG	uc002art.2	+						TMEM84_uc002arv.2_Intron|TMEM84_uc010big.2_Intron					Homo sapiens cDNA FLJ33768 fis, clone BRHIP2000021.												0						tgtgtttataggggggattat	0.000													5	4	---	---	---	---	
LOC145837	145837	broad.mit.edu	37	15	69859082	69859082	+	Intron	DEL	G	-	-	rs11292148		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69859082delG	uc002asg.1	+						LOC145837_uc002ash.1_Intron					Homo sapiens cDNA clone IMAGE:5189446.												0						tcttcctggtgggctcgtggt	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	70301361	70301362	+	IGR	DEL	AC	-	-	rs113446331		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70301361_70301362delAC								C15orf50 (166056 upstream) : TLE3 (39181 downstream)																							GTGTGCTATTacacacacacac	0.465													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	70395970	70395971	+	IGR	INS	-	G	G	rs144528082	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70395970_70395971insG								TLE3 (5714 upstream) : UACA (550924 downstream)																							TCTAAGACCCTGCCCCTATCCC	0.530													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	71389905	71389906	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:71389905_71389906insA								LRRC49 (47471 upstream) : CT62 (12677 downstream)																							actctgtctcgaaaaaaaaaaa	0.158													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	72076370	72076370	+	IGR	DEL	A	-	-	rs34681964		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72076370delA								THSD4 (648 upstream) : NR2E3 (26524 downstream)																							TTTTGCCTGGAAAAACCTCCA	0.174													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	75485847	75485848	+	IGR	INS	-	G	G	rs76403429		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75485847_75485848insG								PPCDC (142781 upstream) : C15orf39 (5385 downstream)																							TCTGCATAGCAGCTGAGCAGTG	0.609													4	3	---	---	---	---	
PTPN9	5780	broad.mit.edu	37	15	75846347	75846348	+	Intron	DEL	TT	-	-	rs72050060		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75846347_75846348delTT	uc002bal.2	-							NM_002833	NP_002824	P43378	PTN9_HUMAN	protein tyrosine phosphatase, non-receptor type							cytoplasmic part	non-membrane spanning protein tyrosine phosphatase activity|protein binding			lung(1)|skin(1)	2						ACTTTCtttctttttttttttt	0.193													4	2	---	---	---	---	
C15orf27	123591	broad.mit.edu	37	15	76451363	76451363	+	Intron	DEL	G	-	-	rs113301225		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76451363delG	uc002bbq.2	+						C15orf27_uc010bkp.2_Intron|C15orf27_uc002bbr.2_Intron	NM_152335	NP_689548	Q2M3C6	CO027_HUMAN	hypothetical protein LOC123591							integral to membrane					0						CCTTGGCCCTGGGGGGGGTTC	0.612													3	3	---	---	---	---	
IREB2	3658	broad.mit.edu	37	15	78764345	78764353	+	Intron	DEL	AGTTTGTAT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78764345_78764353delAGTTTGTAT	uc002bdr.2	+						IREB2_uc010unb.1_Intron|IREB2_uc002bdq.2_Intron	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2								4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		TAAATTATTGAGTTTGTAtagcctctttg	0.167													10	7	---	---	---	---	
CPEB1	64506	broad.mit.edu	37	15	83310505	83310505	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83310505delA	uc002biv.2	-						CPEB1_uc010uof.1_Intron	NM_030594	NP_085097	Q9BZB8	CPEB1_HUMAN	cytoplasmic polyadenylation element binding						mRNA processing|regulation of translation	cell junction|cytoplasmic mRNA processing body|dendrite|postsynaptic density|postsynaptic membrane	nucleotide binding|RNA binding			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(143;0.229)			TCAAGAATACAAAAAAAAAAA	0.368													4	2	---	---	---	---	
TM6SF1	53346	broad.mit.edu	37	15	83786378	83786378	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83786378delA	uc002bjp.2	+						TM6SF1_uc010bmq.2_Intron|TM6SF1_uc002bjq.2_Intron|TM6SF1_uc010bmr.2_Intron	NM_023003	NP_075379	Q9BZW5	TM6S1_HUMAN	transmembrane 6 superfamily member 1 isoform 1							integral to membrane				ovary(1)	1						CAAGGGTGGTAAGCATTGGGG	0.443													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	85698280	85698280	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85698280delA								PDE8A (15910 upstream) : AKAP13 (225591 downstream)																							TCTAAGGTTTAAAATCAGAAT	0.035													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	87856588	87856588	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:87856588delA								AGBL1 (284305 upstream) : NCRNA00052 (263572 downstream)																							AAAAAAAAGGAAAAAAAAAAC	0.264													4	2	---	---	---	---	
ZNF710	374655	broad.mit.edu	37	15	90605452	90605453	+	Intron	INS	-	TC	TC	rs144956377	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90605452_90605453insTC	uc002bov.1	+							NM_198526	NP_940928	Q8N1W2	ZN710_HUMAN	zinc finger protein 710						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	Melanoma(11;0.00551)|Lung NSC(78;0.0196)|all_lung(78;0.04)		BRCA - Breast invasive adenocarcinoma(143;0.00769)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.129)			ccctctccctttctctctctct	0.223													4	3	---	---	---	---	
CRTC3	64784	broad.mit.edu	37	15	91092518	91092519	+	Intron	DEL	GT	-	-	rs35240328		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91092518_91092519delGT	uc002bpp.2	+						CRTC3_uc002bpn.2_Intron|CRTC3_uc002bpo.2_Intron	NM_022769	NP_073606	Q6UUV7	CRTC3_HUMAN	transducer of regulated CREB protein 3 isoform						interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus			CRTC3/MAML2(26)	salivary_gland(26)|ovary(1)	27	Melanoma(11;0.00551)|Lung NSC(78;0.0931)|all_lung(78;0.163)		BRCA - Breast invasive adenocarcinoma(143;0.0745)			TTTGTTCATGgtgtgtgtgtgt	0.287			T	MAML2	salivary gland mucoepidermoid								2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	92292688	92292689	+	IGR	INS	-	GGTAGA	GGTAGA			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:92292688_92292689insGGTAGA								SV2B (454040 upstream) : SLCO3A1 (104249 downstream)																							gaggtggaggtggtggaggtgg	0.000													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	93734924	93734925	+	IGR	INS	-	A	A	rs138550559		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93734924_93734925insA								RGMA (102491 upstream) : None (None downstream)																							ccagcggtcttaaaaaaaaaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	96773131	96773133	+	IGR	DEL	AAC	-	-	rs36069417		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:96773131_96773133delAAC								LOC145820 (722057 upstream) : NR2F2 (96024 downstream)																							AAaacaacaaaacaacaacaaca	0.197													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	98909409	98909410	+	IGR	INS	-	A	A	rs147535509	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:98909409_98909410insA								ARRDC4 (392342 upstream) : FAM169B (70981 downstream)																							tacccacaccccacacacacac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	100447048	100447048	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100447048delA								C15orf51 (99916 upstream) : ADAMTS17 (64595 downstream)																							CTCATGTAATAACCATTCTTC	0.433													4	2	---	---	---	---	
LASS3	204219	broad.mit.edu	37	15	101083739	101083740	+	Intron	DEL	TT	-	-	rs72371158		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101083739_101083740delTT	uc002bvz.2	-						LASS3_uc002bwa.2_Intron|LASS3_uc002bwb.2_Intron	NM_178842	NP_849164	Q8IU89	CERS3_HUMAN	LAG1 longevity assurance homolog 3							endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4	Lung NSC(78;0.0018)|all_lung(78;0.00278)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000867)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)			cctttctttctttttttttttt	0.099													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	101193248	101193248	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101193248delT								ASB7 (1346 upstream) : ALDH1A3 (226761 downstream)																							TGATTAGATGTGATCTTTAAG	0.458													4	2	---	---	---	---	
NTHL1	4913	broad.mit.edu	37	16	2095338	2095339	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2095338_2095339insA	uc002col.1	-						NTHL1_uc002com.1_Intron	NM_002528	NP_002519	P78549	NTHL1_HUMAN	nth endonuclease III-like 1						depyrimidination|nucleotide-excision repair, DNA incision, 5'-to lesion	nucleoplasm	4 iron, 4 sulfur cluster binding|double-stranded DNA binding|endonuclease activity|metal ion binding|oxidized pyrimidine base lesion DNA N-glycosylase activity|protein binding			lung(1)	1						gacttggtctcaaaaaaaaaCC	0.144								BER_DNA_glycosylases					4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	3156059	3156059	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3156059delA								ZSCAN10 (6766 upstream) : MGC3771 (4402 downstream)																							TACCTAGTTTAAAAAAAAAAA	0.358													4	2	---	---	---	---	
GRIN2A	2903	broad.mit.edu	37	16	10178249	10178249	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10178249delG	uc002czo.3	-						GRIN2A_uc010uym.1_Intron|GRIN2A_uc002czr.3_Intron	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform						response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TCTTCTCTCCGAAAAACTGCT	0.468													4	2	---	---	---	---	
CLEC16A	23274	broad.mit.edu	37	16	11063214	11063215	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11063214_11063215insT	uc002dao.2	+						CLEC16A_uc002dan.3_Intron	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A											ovary(1)|central_nervous_system(1)	2						CCACACGTGGCTTTTTTTTTTT	0.381													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	11329627	11329628	+	IGR	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11329627_11329628delGT								CLEC16A (53583 upstream) : C16orf75 (13878 downstream)																							CAAGCGTGTGGTGTGTGTGTGT	0.163													4	2	---	---	---	---	
SNX29	92017	broad.mit.edu	37	16	12468148	12468148	+	Intron	DEL	C	-	-	rs3214484		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12468148delC	uc002dby.3	+							NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29						cell communication		phosphatidylinositol binding			ovary(1)	1						cagtctgcagcctggtggagg	0.134													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	14008361	14008362	+	IGR	INS	-	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14008361_14008362insC								SHISA9 (674089 upstream) : ERCC4 (5652 downstream)																							ctgacagccctcccccttcagc	0.000													4	2	---	---	---	---	
PDXDC1	23042	broad.mit.edu	37	16	15080954	15080954	+	Intron	DEL	A	-	-	rs74816966		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15080954delA	uc002dda.3	+						PDXDC1_uc010uzl.1_Intron|PDXDC1_uc010uzm.1_Intron|PDXDC1_uc010bvc.1_Intron|PDXDC1_uc002dcz.2_Intron|PDXDC1_uc002ddb.3_Intron|PDXDC1_uc010uzn.1_Intron|PDXDC1_uc002ddc.2_Intron	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain						carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	TGGAAAAAGGAAAAAAAAAAA	0.279													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	26386144	26386147	+	IGR	DEL	TGGA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26386144_26386147delTGGA								HS3ST4 (237136 upstream) : C16orf82 (692072 downstream)																							GGTAgatggttggatggatggatg	0.103													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	26599065	26599072	+	IGR	DEL	ACAGACAG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26599065_26599072delACAGACAG								HS3ST4 (450057 upstream) : C16orf82 (479147 downstream)																							ACATACAGACacagacagacagacagac	0.216													4	2	---	---	---	---	
GSG1L	146395	broad.mit.edu	37	16	27977833	27977834	+	Intron	DEL	AA	-	-	rs142821872		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27977833_27977834delAA	uc002doz.2	-						GSG1L_uc010bya.1_Intron	NM_001109763	NP_001103233	Q6UXU4	GSG1L_HUMAN	GSG1-like isoform 1							integral to membrane				ovary(1)	1						acaaacaaacaaTATtgaagga	0.054													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	28101321	28101322	+	IGR	DEL	AC	-	-	rs72416348		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28101321_28101322delAC								GSG1L (26491 upstream) : XPO6 (7994 downstream)																							caaaccacatacacacacacac	0.188													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	30576793	30576793	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30576793delA								ZNF764 (7209 upstream) : ZNF688 (4226 downstream)																							ccctgtctggaaaaaaaatta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32476163	32476163	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32476163delT								HERC2P4 (312289 upstream) : TP53TG3B (208678 downstream)																							agtcctcggctttttttgttg	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33060110	33060111	+	IGR	DEL	AA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33060110_33060111delAA								SLC6A10P (163647 upstream) : MIR1826 (905397 downstream)																							aaagaaagagaaagaaagagag	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33387184	33387185	+	IGR	DEL	AG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33387184_33387185delAG								SLC6A10P (490721 upstream) : MIR1826 (578323 downstream)																							tttttgagacagagtctcactg	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33423309	33423310	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33423309_33423310insA								SLC6A10P (526846 upstream) : MIR1826 (542198 downstream)																							gactccgtcttaaaaaaaaaaa	0.089													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33521341	33521341	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33521341delT								SLC6A10P (624878 upstream) : MIR1826 (444167 downstream)																							acccctaaactggcagttggt	0.095													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33574533	33574533	+	IGR	DEL	G	-	-	rs113661270		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33574533delG								SLC6A10P (678070 upstream) : MIR1826 (390975 downstream)																							TGTCTTAAAAGTTCCTGCACA	0.239													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33585718	33585718	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33585718delT								SLC6A10P (689255 upstream) : MIR1826 (379790 downstream)																							CGACAATGTATTTTAAAATAT	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33901007	33901008	+	IGR	INS	-	C	C	rs75681794		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33901007_33901008insC								None (None upstream) : MIR1826 (64500 downstream)																							tccattccatgcttgccatgcc	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33948632	33948637	+	IGR	DEL	GCGACT	-	-	rs11276766		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33948632_33948637delGCGACT								None (None upstream) : MIR1826 (16871 downstream)																							CCCCCGACTGGCGACTgtggtggtgg	0.364													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33951847	33951847	+	IGR	DEL	T	-	-	rs78456927	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33951847delT								None (None upstream) : MIR1826 (13661 downstream)																							gcctcccaaattgctgggatg	0.000													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33969900	33969901	+	IGR	INS	-	TTT	TTT	rs112323539		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33969900_33969901insTTT								MIR1826 (4308 upstream) : UBE2MP1 (433901 downstream)																							CTCTGGGTTTATTTATTTATTT	0.054													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33997072	33997072	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33997072delA								MIR1826 (31480 upstream) : UBE2MP1 (406730 downstream)																							tggacacatcacaaagaactt	0.000													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	46457875	46457875	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:46457875delG								None (None upstream) : ANKRD26P1 (45374 downstream)																							CTTAAGGATTGCCTTAGAATC	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	48193101	48193101	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48193101delA								ABCC12 (3172 upstream) : ABCC11 (7721 downstream)																							GTTCTGTCTGAaaaaaaaaat	0.119													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	57402186	57402187	+	IGR	INS	-	A	A	rs138564138		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57402186_57402187insA								CCL22 (2087 upstream) : CX3CL1 (4227 downstream)																							cccatctctacaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	61600916	61600916	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61600916delT								None (None upstream) : CDH8 (86319 downstream)																							gatggtgccctcccacattgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	62542909	62542910	+	IGR	INS	-	AGG	AGG	rs143806372		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:62542909_62542910insAGG								CDH8 (472873 upstream) : None (None downstream)																							ggaaaaaggaaagaaaggaagt	0.089													3	3	---	---	---	---	
WDR59	79726	broad.mit.edu	37	16	74917736	74917736	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74917736delG	uc002fdh.1	-						WDR59_uc002fdf.1_Intron|WDR59_uc002fdg.1_Intron	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59											ovary(1)|breast(1)	2						tccacatgctggggatcccca	0.000													4	2	---	---	---	---	
CNTNAP4	85445	broad.mit.edu	37	16	76427584	76427585	+	Intron	INS	-	A	A	rs74368492		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76427584_76427585insA	uc002feu.1	+						CNTNAP4_uc002fev.1_Intron|CNTNAP4_uc010chb.1_Intron|CNTNAP4_uc002fex.1_Intron|CNTNAP4_uc002few.2_Intron	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1						cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						ATTCCTGGCAGAAAAAAAAAAA	0.520													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	84085393	84085393	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84085393delC								SLC38A8 (9631 upstream) : MBTPS1 (1978 downstream)																							AGCTGCAAGGCCGCATGTGGG	0.607													4	2	---	---	---	---	
TP53	7157	broad.mit.edu	37	17	7576904	7576904	+	Frame_Shift_Del	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7576904delG	uc002gim.2	-	9	1136	c.942delC	c.(940-942)TCCfs	p.S314fs	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Frame_Shift_Del_p.S314fs|TP53_uc010cne.1_RNA|TP53_uc010cnf.1_Frame_Shift_Del_p.S182fs|TP53_uc010cng.1_Frame_Shift_Del_p.S182fs|TP53_uc002gii.1_Frame_Shift_Del_p.S182fs|TP53_uc010cnh.1_Frame_Shift_Del_p.S314fs|TP53_uc010cni.1_Frame_Shift_Del_p.S314fs|TP53_uc002gij.2_Frame_Shift_Del_p.S314fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	314	Bipartite nuclear localization signal.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.		S -> F (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.S315fs*22(2)|p.S315fs*30(1)|p.?(1)|p.S314F(1)|p.S314fs*25(1)|p.L308fs*15(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCTGGGGAGAGGAGCTGGTGT	0.478		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			18	27	---	---	---	---	
NTN1	9423	broad.mit.edu	37	17	9099391	9099393	+	Intron	DEL	CTG	-	-	rs71887867		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9099391_9099393delCTG	uc002glw.3	+							NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor						apoptosis|axon guidance		protein binding				0						CTGGGAAGGCCTGCTTTGGAGGC	0.409													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	13135494	13135495	+	IGR	DEL	AC	-	-	rs71369374		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:13135494_13135495delAC								ELAC2 (214135 upstream) : HS3ST3A1 (263511 downstream)																							atatatatatacacacacacac	0.153													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	14729198	14729199	+	IGR	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:14729198_14729199delGT								HS3ST3B1 (479706 upstream) : PMP22 (403898 downstream)																							TTGTTTTGGGGTGTGTGTGTGT	0.356													4	2	---	---	---	---	
SLC47A1	55244	broad.mit.edu	37	17	19438750	19438754	+	Intron	DEL	AAAAC	-	-	rs72292627		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:19438750_19438754delAAAAC	uc002gvy.1	+						SLC47A1_uc010vyy.1_Intron|SLC47A1_uc002gvx.2_Intron|SLC47A1_uc010vyz.1_Intron|SLC47A1_uc010cqp.1_Intron	NM_018242	NP_060712	Q96FL8	S47A1_HUMAN	solute carrier family 47, member 1							integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.49e-05)|all_epithelial(12;0.00263)|Hepatocellular(7;0.00345)					ttggtctcaaaaaacaaaacaaaac	0.020													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	19774599	19774599	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:19774599delG								ULK2 (3360 upstream) : AKAP10 (34153 downstream)																							agccgagcgtggtggtgtgtg	0.000													4	2	---	---	---	---	
KCNJ12	3768	broad.mit.edu	37	17	21305652	21305653	+	Intron	INS	-	C	C	rs146958586		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21305652_21305653insC	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)	TCTTTTTTTTTCCTCAGCCTGT	0.520										Prostate(3;0.18)			5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21347043	21347044	+	IGR	DEL	AG	-	-	rs111380221		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21347043_21347044delAG								KCNJ12 (23864 upstream) : C17orf51 (84528 downstream)																							aagcacaggcagagttaattta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21528329	21528329	+	IGR	DEL	G	-	-	rs75053775		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21528329delG								C17orf51 (50598 upstream) : FAM27L (297041 downstream)																							ttcctgagtaggtgggattac	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	25279758	25279759	+	IGR	INS	-	A	A	rs4257240	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25279758_25279759insA								None (None upstream) : WSB1 (341347 downstream)																							gaaaggaaaagaaaaagaaaag	0.030													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	25305912	25305912	+	IGR	DEL	C	-	-	rs144543866	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25305912delC								None (None upstream) : WSB1 (315194 downstream)																							CTACAAGATACTTTAGGCTGC	0.264													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	25752455	25752456	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25752455_25752456insT	uc002gzg.2	+						uc002gzi.1_5'Flank					Homo sapiens similar to ubiquitin specific protease 6, mRNA (cDNA clone IMAGE:5168266), with apparent retained intron.																		GGCTCCACATCTTGGGAGAGGG	0.624													25	20	---	---	---	---	
SARM1	23098	broad.mit.edu	37	17	26710913	26710913	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26710913delA	uc010crl.1	+						SARM1_uc010waj.1_Intron|SARM1_uc002hbe.1_5'Flank	NM_015077	NP_055892	Q6SZW1	SARM1_HUMAN	sterile alpha and TIR motif containing 1						innate immune response	cytoplasm|intrinsic to membrane	binding|transmembrane receptor activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		GTGGAGTGGGAGGATTCCCAT	0.299													4	2	---	---	---	---	
SUPT6H	6830	broad.mit.edu	37	17	27008731	27008731	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27008731delA	uc002hby.2	+						SUPT6H_uc010crt.2_Intron	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog						chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					gctgtgtctcaaaaaaaaaaa	0.204													4	2	---	---	---	---	
EFCAB5	374786	broad.mit.edu	37	17	28309453	28309453	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28309453delA	uc002het.2	+						EFCAB5_uc010wbi.1_Intron|EFCAB5_uc010wbj.1_Intron|EFCAB5_uc010wbk.1_Intron|EFCAB5_uc010csd.2_Intron|EFCAB5_uc010cse.2_Intron|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a								calcium ion binding			ovary(1)|skin(1)	2						TTGTGAAACTAAGACCACCAG	0.229													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	28668971	28668972	+	IGR	DEL	CA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28668971_28668972delCA								TMIGD1 (7906 upstream) : CPD (37012 downstream)																							cacacacatgcacacacacaca	0.208													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	35210426	35210429	+	IGR	DEL	AAGG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35210426_35210429delAAGG								MRM1 (245020 upstream) : LHX1 (84070 downstream)																							agaaagaaaaaaggaaggaaggaa	0.191													6	5	---	---	---	---	
ACACA	31	broad.mit.edu	37	17	35443318	35443319	+	3'UTR	INS	-	CTAT	CTAT			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35443318_35443319insCTAT	uc002hnm.2	-	56					ACACA_uc002hnk.2_3'UTR|ACACA_uc002hnl.2_3'UTR|ACACA_uc002hnn.2_3'UTR|ACACA_uc002hno.2_3'UTR|ACACA_uc010cuy.2_3'UTR|ACACA_uc010wdb.1_3'UTR|ACACA_uc010wdc.1_3'UTR	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2						acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	AAACAAACAGACTATCTATCTA	0.470													4	4	---	---	---	---	
IKZF3	22806	broad.mit.edu	37	17	37963578	37963578	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37963578delA	uc002hsu.2	-						IKZF3_uc002htd.2_Intron|IKZF3_uc010cwd.2_Intron|IKZF3_uc002hsv.2_Intron|IKZF3_uc010cwe.2_Intron|IKZF3_uc010cwf.2_Intron|IKZF3_uc010cwg.2_Intron|IKZF3_uc002hsw.2_Intron|IKZF3_uc002hsx.2_Intron|IKZF3_uc002hsy.2_Intron|IKZF3_uc002hsz.2_Intron|IKZF3_uc002hta.2_Intron|IKZF3_uc002htb.2_Intron|IKZF3_uc010cwh.2_Intron|IKZF3_uc002htc.2_Intron	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1						B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			catagaagctaaaaaatgcaa	0.000													4	2	---	---	---	---	
CDC6	990	broad.mit.edu	37	17	38458603	38458603	+	3'UTR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38458603delT	uc002huj.1	+	12						NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein						cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						TTTttgtttgttttttttgtt	0.184													4	2	---	---	---	---	
CCR7	1236	broad.mit.edu	37	17	38718050	38718050	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38718050delT	uc002huw.2	-							NM_001838	NP_001829	P32248	CCR7_HUMAN	chemokine (C-C motif) receptor 7 precursor						cell maturation|immunological synapse formation|inflammatory response|interleukin-12 secretion|lymphocyte migration into lymph node|positive regulation of dendritic cell antigen processing and presentation|positive regulation of glycoprotein biosynthetic process|positive regulation of humoral immune response|positive regulation of hypersensitivity|positive regulation of interleukin-12 production|positive regulation of neutrophil chemotaxis|regulation of interferon-gamma production|regulation of interleukin-1 beta secretion|T cell costimulation	integral to membrane|intracellular	C-C chemokine receptor activity|chemokine (C-C motif) ligand 19 binding|chemokine (C-C motif) ligand 21 binding			breast(1)	1		Breast(137;0.000496)				TCTCTCTCTCTTTTTTTTTGG	0.502													4	2	---	---	---	---	
KRTAP9-9	81870	broad.mit.edu	37	17	39409245	39409246	+	Intron	INS	-	AAGGG	AAGGG	rs145715968	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39409245_39409246insAAGGG	uc010wfq.1	+							NM_030975	NP_112237	B5MDD6	B5MDD6_HUMAN	keratin associated protein 9-9							keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			aaggaaaaggaaagggaaggga	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	40185414	40185414	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40185414delT								NKIRAS2 (7760 upstream) : DHX58 (68008 downstream)																							ctgtgtggtcttaggcaagtc	0.030													4	2	---	---	---	---	
LOC388387	388387	broad.mit.edu	37	17	41038699	41038699	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41038699delA	uc010whe.1	-						LOC388387_uc002ibz.2_Intron|LOC388387_uc002iby.2_Intron|LOC388387_uc002ica.2_Intron					SubName: Full=cDNA FLJ57415;												0						CTCACTCCCCACACTGAACCT	0.478													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	42637383	42637384	+	IGR	INS	-	A	A	rs140322740	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42637383_42637384insA								FZD2 (476 upstream) : C17orf104 (96598 downstream)																							TGAAGACGTGGAAAAAAAAATC	0.525													3	4	---	---	---	---	
CRHR1	1394	broad.mit.edu	37	17	43746188	43746188	+	Intron	DEL	C	-	-	rs66750197		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43746188delC	uc002ijp.2	+						CRHR1_uc010wjx.1_Intron			P34998	CRFR1_HUMAN	SubName: Full=cDNA FLJ60308, highly similar to Corticotropin-releasing factor receptor 1;						female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		atgactgcctccttactttgc	0.209													4	2	---	---	---	---	
CRHR1	1394	broad.mit.edu	37	17	43807913	43807914	+	Intron	INS	-	A	A	rs111610904		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43807913_43807914insA	uc002ijp.2	+						CRHR1_uc010wjx.1_Intron			P34998	CRFR1_HUMAN	SubName: Full=cDNA FLJ60308, highly similar to Corticotropin-releasing factor receptor 1;						female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		aggaaggaaggaaggaaggaag	0.262													4	2	---	---	---	---	
CRHR1	1394	broad.mit.edu	37	17	43908477	43908477	+	Intron	DEL	T	-	-	rs56396707		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43908477delT	uc010dap.2	+						CRHR1_uc010wjx.1_Intron|CRHR1_uc002ijp.2_Intron|CRHR1_uc002ijm.2_Intron|CRHR1_uc002ijn.2_Intron|CRHR1_uc010dar.2_Intron|CRHR1_uc010dao.2_Intron|CRHR1_uc010daq.2_Intron	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1						female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		tccctgcctgtgctctgCCTG	0.199													3	3	---	---	---	---	
WNT3	7473	broad.mit.edu	37	17	44877887	44877888	+	Intron	INS	-	A	A	rs148409954	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:44877887_44877888insA	uc002ikv.2	-							NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,						canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			GGCTGACTCTTACACTGGGAAG	0.505													4	2	---	---	---	---	
CDC27	996	broad.mit.edu	37	17	45214437	45214438	+	Intron	INS	-	A	A	rs113666698		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45214437_45214438insA	uc002ild.3	-						CDC27_uc002ile.3_Intron|CDC27_uc002ilf.3_Intron|CDC27_uc010wkp.1_Intron|CDC27_uc010wkq.1_Intron	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						TTCATGATAATAAAGAGCTATC	0.312													8	4	---	---	---	---	
NPEPPS	9520	broad.mit.edu	37	17	45646982	45646982	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45646982delT	uc002ilr.3	+						NPEPPS_uc010wkt.1_Intron|NPEPPS_uc010wku.1_Intron|NPEPPS_uc010dba.1_Intron	NM_006310	NP_006301	P55786	PSA_HUMAN	aminopeptidase puromycin sensitive						proteolysis	cytosol|nucleus	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0						TATTAAGAGCttttttttttt	0.169													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	47319331	47319332	+	IGR	INS	-	AC	AC	rs143026630	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47319331_47319332insAC								PHOSPHO1 (11203 upstream) : ZNF652 (47237 downstream)																							CACATAGAAATacacacacaca	0.386													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	47550280	47550280	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47550280delT								PHB (58038 upstream) : NGFR (22375 downstream)																							CAAATCTCCATTTTCTGGAAG	0.547													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	49462979	49462980	+	IGR	INS	-	T	T	rs76508267		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:49462979_49462980insT								UTP18 (87689 upstream) : CA10 (244695 downstream)																							Gtttcttcttcttttttttttt	0.238													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	51787988	51787989	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:51787988_51787989insT								None (None upstream) : KIF2B (112250 downstream)																							gtctttctttcttttttttttt	0.282													5	3	---	---	---	---	
CYB561	1534	broad.mit.edu	37	17	61526026	61526027	+	5'Flank	INS	-	CC	CC			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61526026_61526027insCC	uc002jas.2	-						CYB561_uc010ddt.2_5'Flank|CYB561_uc002jat.2_5'Flank|CYB561_uc010wpf.1_5'Flank|CYB561_uc010wpg.1_5'Flank	NM_001017916	NP_001017916	P49447	CY561_HUMAN	cytochrome b-561						electron transport chain|transport	integral to plasma membrane	cytochrome-b5 reductase activity|ferric-chelate reductase activity|metal ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(1115;0.0689)		tctgttttcagatgcaccaagt	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	61927820	61927823	+	IGR	DEL	AGGG	-	-	rs111911000		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61927820_61927823delAGGG								SMARCD2 (7469 upstream) : TCAM1P (6553 downstream)																							gagggagggaagggagggagggag	0.108													3	4	---	---	---	---	
LRRC37A3	374819	broad.mit.edu	37	17	62917127	62917128	+	5'Flank	INS	-	AGGG	AGGG	rs140057763		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62917127_62917128insAGGG	uc002jey.2	-						LRRC37A3_uc010wqg.1_5'Flank	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3							integral to membrane					0						tgccaggaaccaggaagatcaa	0.163													4	2	---	---	---	---	
ARSG	22901	broad.mit.edu	37	17	66281906	66281907	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66281906_66281907insT	uc002jhc.2	+						SLC16A6_uc002jgz.1_Intron|SLC16A6_uc002jha.1_Intron	NM_014960	NP_055775	Q96EG1	ARSG_HUMAN	Arylsulfatase G precursor						sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			tgcccagccaattttttttttt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	66687472	66687477	+	IGR	DEL	TGTGTG	-	-	rs111994090		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66687472_66687477delTGTGTG								FAM20A (90377 upstream) : ABCA8 (175956 downstream)																							tctccttctttgtgtgtgtgtgtgtg	0.034													4	3	---	---	---	---	
KCNJ16	3773	broad.mit.edu	37	17	68129635	68129635	+	3'UTR	DEL	T	-	-	rs58106784		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:68129635delT	uc002jin.2	+	5					KCNJ16_uc002jio.2_3'UTR|KCNJ16_uc002jip.2_3'UTR|KCNJ16_uc002jiq.2_3'UTR	NM_018658	NP_061128	Q9NPI9	IRK16_HUMAN	potassium inwardly-rectifying channel J16						synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Breast(10;2.96e-09)					TAAAAGATAATCTAAAAATTC	0.279													4	3	---	---	---	---	
JMJD6	23210	broad.mit.edu	37	17	74719527	74719527	+	Intron	DEL	T	-	-	rs67470330		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74719527delT	uc002jso.2	-						JMJD6_uc002jsn.1_Intron|JMJD6_uc010dgz.2_Intron	NM_015167	NP_055982	Q6NYC1	JMJD6_HUMAN	jumonji domain containing 6 isoform 2						mRNA processing|peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine|regulation of nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|sprouting angiogenesis|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-R2 specific)|histone demethylase activity (H4-R3 specific)|identical protein binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptidyl-lysine 5-dioxygenase activity|single-stranded RNA binding			skin(2)|ovary(1)	3						ATGTACtttcttttttttttt	0.174													3	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	75099203	75099203	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:75099203delT								C17orf86 (8136 upstream) : SEC14L1 (37802 downstream)																							tttttctttcttttttttttg	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	77902337	77902337	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77902337delA								CBX4 (89124 upstream) : TBC1D16 (11484 downstream)																							GCTCCCTCTTAAAAAAAAATC	0.517													4	2	---	---	---	---	
AZI1	22994	broad.mit.edu	37	17	79181729	79181730	+	Intron	DEL	CA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79181729_79181730delCA	uc002jzp.1	-						AZI1_uc002jzn.1_Intron|AZI1_uc002jzo.1_Intron|AZI1_uc010wum.1_Intron	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a						cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			acacacacaccacacaccatac	0.129													4	2	---	---	---	---	
SLC16A3	9123	broad.mit.edu	37	17	80194970	80194971	+	Intron	INS	-	G	G	rs146710111	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80194970_80194971insG	uc002kea.2	+						SLC16A3_uc002kee.2_Intron|SLC16A3_uc002keb.2_Intron|SLC16A3_uc002kec.2_Intron|SLC16A3_uc002ked.2_Intron	NM_001042422	NP_001035887	O15427	MOT4_HUMAN	solute carrier family 16, member 3						blood coagulation|leukocyte migration|organic anion transport|pyruvate metabolic process	actin cytoskeleton|integral to plasma membrane|membrane fraction|nuclear membrane	secondary active monocarboxylate transmembrane transporter activity|symporter activity			upper_aerodigestive_tract(1)|lung(1)	2	Breast(20;0.00285)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.227)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0149)		Pyruvic acid(DB00119)	TCTCGGGCTTTGGGGCAGCCTT	0.634													3	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	587931	587931	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:587931delG								CETN1 (6407 upstream) : CLUL1 (9067 downstream)																							atatgagtgagaacatgtagt	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	977286	977286	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:977286delT								ADCYAP1 (65115 upstream) : C18orf2 (277104 downstream)																							tgcatatgtatttaggatggt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	2127382	2127383	+	IGR	INS	-	CAAAA	CAAAA	rs140676314	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2127382_2127383insCAAAA								C18orf2 (720201 upstream) : METTL4 (410142 downstream)																							cttcctTTTAGCAGAGTATTCC	0.213													4	2	---	---	---	---	
DLGAP1	9229	broad.mit.edu	37	18	4421253	4421254	+	Intron	DEL	TC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:4421253_4421254delTC	uc010wyz.1	-							NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform						synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				tgtagccacatctctctctctc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	6752949	6752950	+	IGR	INS	-	T	T	rs143424759	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6752949_6752950insT								L3MBTL4 (338039 upstream) : ARHGAP28 (35543 downstream)																							ATTGGCAATACTTTTTTTTTTC	0.307													2	4	---	---	---	---	
RALBP1	10928	broad.mit.edu	37	18	9502815	9502816	+	Intron	INS	-	A	A	rs113234135		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9502815_9502816insA	uc002kob.2	+						RALBP1_uc002koc.2_Intron	NM_006788	NP_006779	Q15311	RBP1_HUMAN	ralA binding protein 1						chemotaxis|positive regulation of Cdc42 GTPase activity|small GTPase mediated signal transduction|transport	cytosol|membrane	ATPase activity, coupled to movement of substances|Rac GTPase activator activity|Rac GTPase binding|Ral GTPase binding			central_nervous_system(1)	1						ccaaacaaaccaaaaaaaacag	0.000													2	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	14183191	14183199	+	Intron	DEL	TCATTGCAC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:14183191_14183199delTCATTGCAC	uc010xag.1	+						uc002ksv.1_5'Flank					RecName: Full=Putative ankyrin repeat domain-containing protein 20A5;																		tatagttacatcattgcactccagcctgg	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	14233285	14233286	+	IGR	INS	-	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:14233285_14233286insG								ZNF519 (100856 upstream) : LOC284233 (104136 downstream)																							TGGACATATAATGTCAAGTCCA	0.243													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	15393673	15393673	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:15393673delA								LOC644669 (67755 upstream) : None (None downstream)																							atcttcacataaaaactagac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	15409039	15409039	+	IGR	DEL	A	-	-	rs144372703		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:15409039delA								LOC644669 (83121 upstream) : None (None downstream)																							tagacagaacaattctgagaa	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	19893897	19893898	+	IGR	INS	-	TTTG	TTTG	rs139262559	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19893897_19893898insTTTG								GATA6 (111670 upstream) : CTAGE1 (99666 downstream)																							AAGATGCGTGTtttgtttgttt	0.351													3	3	---	---	---	---	
LAMA3	3909	broad.mit.edu	37	18	21469682	21469689	+	Intron	DEL	AAGGAAGA	-	-	rs112936521	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21469682_21469689delAAGGAAGA	uc002kuq.2	+						LAMA3_uc002kur.2_Intron|LAMA3_uc002kus.3_Intron|LAMA3_uc002kut.3_Intron	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1						cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	gggaggaaggaaggaagaaaggaaggaa	0.106													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	24006642	24006643	+	IGR	INS	-	A	A	rs79679738		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:24006642_24006643insA								TAF4B (34995 upstream) : KCTD1 (28234 downstream)																							aactccgtctcaaaaaaaaaaa	0.035													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	28404750	28404750	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28404750delA								MIR302F (525824 upstream) : DSC3 (165303 downstream)																							agctttggggaaaaaaaaaaa	0.114													2	4	---	---	---	---	
DSC1	1823	broad.mit.edu	37	18	28730451	28730452	+	Intron	INS	-	CAT	CAT			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28730451_28730452insCAT	uc002kwn.2	-						DSC1_uc002kwm.2_Intron	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein						homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			atcatcagcaccatcatcacca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	30380334	30380335	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30380334_30380335insT								KLHL14 (27360 upstream) : C18orf34 (137031 downstream)																							CCACTATATTCTTTTTTTTTTT	0.347													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	31939098	31939099	+	IGR	DEL	GG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:31939098_31939099delGG								NOL4 (135652 upstream) : DTNA (134155 downstream)																							actgtctcctgggagtttccct	0.000													4	2	---	---	---	---	
DTNA	1837	broad.mit.edu	37	18	32402594	32402595	+	Intron	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32402594_32402595delGT	uc010dmn.1	+						DTNA_uc002kxu.2_Intron|DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Intron|DTNA_uc002kxw.2_Intron|DTNA_uc002kxx.2_Intron|DTNA_uc010dmj.2_Intron|DTNA_uc002kxz.2_Intron|DTNA_uc002kxy.2_Intron|DTNA_uc010dmk.1_Intron|DTNA_uc010dml.2_Intron|DTNA_uc002kyb.3_Intron|DTNA_uc010dmm.2_Intron|DTNA_uc010xby.1_Intron|DTNA_uc010dmo.2_Intron|DTNA_uc002kyd.3_Intron|DTNA_uc010xbz.1_Intron|DTNA_uc010xca.1_Intron|DTNA_uc002kye.2_Intron	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1						neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						GGATTGGGTGgtgtgtgtgtgt	0.371													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	37535944	37535945	+	IGR	INS	-	TG	TG	rs146918743	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:37535944_37535945insTG								LOC647946 (155662 upstream) : None (None downstream)																							TTGGgtgtgtatgtgtgtgtgt	0.139													4	2	---	---	---	---	
ATP5A1	498	broad.mit.edu	37	18	43665900	43665900	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43665900delA	uc002lbr.1	-						ATP5A1_uc010dnl.1_Intron|ATP5A1_uc002lbs.1_Intron|ATP5A1_uc002lbt.1_Intron	NM_004046	NP_004037	P25705	ATPA_HUMAN	ATP synthase, H+ transporting, mitochondrial F1						ATP hydrolysis coupled proton transport|embryo development|lipid metabolic process|negative regulation of endothelial cell proliferation|respiratory electron transport chain	mitochondrial matrix|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism				0						acttcgtctcaaaaaaaaaaa	0.124													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	48937283	48937284	+	Intron	INS	-	AAAGGC	AAAGGC	rs145844274	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48937283_48937284insAAAGGC	uc010xdq.1	+											Homo sapiens cDNA FLJ37617 fis, clone BRCOC2012229.																		GGAAACGATAGAAAGGCAAAGG	0.228													4	5	---	---	---	---	
CCDC102B	79839	broad.mit.edu	37	18	66564775	66564775	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66564775delC	uc002lkk.2	+						CCDC102B_uc002lki.2_Intron|CCDC102B_uc002lkj.1_Intron	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B											ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				TCCTTTTGTGCCAGCTAATAC	0.408													37	27	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	72062982	72062983	+	IGR	DEL	AC	-	-	rs34978334		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72062982_72062983delAC								CYB5A (103761 upstream) : FAM69C (39981 downstream)																							GATAATTACAacacacacacac	0.297													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	73825338	73825338	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:73825338delC								C18orf62 (685749 upstream) : ZNF516 (246281 downstream)																							TCTGTGACTGCCACTCTCTTG	0.453													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	75635406	75635407	+	IGR	DEL	TG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:75635406_75635407delTG								GALR1 (653312 upstream) : None (None downstream)																							tctctgtgtatgtgtgtgtgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	75974001	75974001	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:75974001delC								GALR1 (991907 upstream) : SALL3 (766274 downstream)																							GAAGTGCTTGCCCCCTAATTC	0.279													4	2	---	---	---	---	
ABCA7	10347	broad.mit.edu	37	19	1048822	1048823	+	Intron	DEL	AC	-	-	rs117094519		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1048822_1048823delAC	uc002lqw.3	+						ABCA7_uc010dsb.1_Intron	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7						phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|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)		aaaaaaaaaaacaaaaccccaa	0.267													4	2	---	---	---	---	
GIPC3	126326	broad.mit.edu	37	19	3590186	3590187	+	Frame_Shift_Ins	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3590186_3590187insA	uc002lyd.3	+	6	964_965	c.937_938insA	c.(937-939)TAGfs	p.*313fs		NM_133261	NP_573568	Q8TF64	GIPC3_HUMAN	GIPC PDZ domain containing family, member 3	313										breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0025)|STAD - Stomach adenocarcinoma(1328;0.18)		GGCCTGTGGCTAGTTTGCCCTG	0.421													4	2	---	---	---	---	
ZBTB7A	51341	broad.mit.edu	37	19	4046571	4046572	+	3'UTR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4046571_4046572insT	uc002lzh.2	-	3					ZBTB7A_uc002lzi.2_3'UTR	NM_015898	NP_056982	O95365	ZBT7A_HUMAN	zinc finger and BTB domain containing 7A						cell differentiation|multicellular organismal development|transcription, DNA-dependent	nucleus	DNA binding|histone acetyltransferase binding|zinc ion binding			pancreas(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.014)|STAD - Stomach adenocarcinoma(1328;0.18)		GGTTGGTTGCCTTTTTTTTTTT	0.317													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	4146511	4146512	+	IGR	INS	-	T	T	rs146975667	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4146511_4146512insT								MAP2K2 (22385 upstream) : CREB3L3 (7117 downstream)																							ACCATGTAGACttttttttcct	0.045													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	5386002	5386013	+	IGR	DEL	AGGAAGGAAGGA	-	-	rs111509028		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5386002_5386013delAGGAAGGAAGGA								PTPRS (45188 upstream) : ZNRF4 (69413 downstream)																							Aaaggcaggcaggaaggaaggaaggaaggaag	0.009													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	7309138	7309138	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7309138delA								INSR (15127 upstream) : ARHGEF18 (138582 downstream)																							ccatctcaggaaaaaaaaaaa	0.020													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	8878765	8878766	+	IGR	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8878765_8878766delGT								OR2Z1 (36431 upstream) : ZNF558 (41616 downstream)																							CTGTGAAAGCgtgtgtgtgtgt	0.361													4	2	---	---	---	---	
TECR	9524	broad.mit.edu	37	19	14674149	14674157	+	Intron	DEL	CCCCTCTCC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14674149_14674157delCCCCTCTCC	uc002mza.2	+						TECR_uc002mzb.2_Intron|TECR_uc010xns.1_Intron|TECR_uc002mzc.2_Intron|TECR_uc002mzd.2_Intron|TECR_uc002mze.2_5'Flank|TECR_uc002mzf.1_5'Flank	NM_138501	NP_612510	Q9NZ01	TECR_HUMAN	glycoprotein, synaptic 2						fatty acid elongation|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	trans-2-enoyl-CoA reductase (NADPH) activity|very long-chain-acyl-CoA dehydrogenase activity				0						CCATCCTGCACCCCTCTCCCAGGGGCCTG	0.651													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	15457185	15457186	+	IGR	DEL	AC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15457185_15457186delAC								BRD4 (13843 upstream) : AKAP8 (7155 downstream)																							atcctgaagaacacacacacac	0.079													4	2	---	---	---	---	
CYP4F12	66002	broad.mit.edu	37	19	15797367	15797368	+	Intron	DEL	GA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15797367_15797368delGA	uc002nbl.2	+							NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					gagagagaatgagagagaaagG	0.233													4	2	---	---	---	---	
NWD1	284434	broad.mit.edu	37	19	16924885	16924885	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16924885delG	uc002neu.3	+						NWD1_uc002net.3_Intron|NWD1_uc002nev.3_Intron			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;								ATP binding			skin(3)|ovary(2)|pancreas(2)	7						gatcatgggaggtcgaggtgt	0.000													4	2	---	---	---	---	
IL12RB1	3594	broad.mit.edu	37	19	18186558	18186558	+	Splice_Site	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18186558delC	uc002nhw.1	-	7	764	c.700_splice	c.e7+1	p.E234_splice	IL12RB1_uc010xqb.1_Splice_Site_p.E234_splice|IL12RB1_uc002nhx.1_Splice_Site_p.E274_splice|IL12RB1_uc002nhy.2_Splice_Site_p.E234_splice	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1						cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						AGTGATCTTACCAGGGGGAAC	0.428													21	18	---	---	---	---	
UPF1	5976	broad.mit.edu	37	19	18952913	18952913	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18952913delT	uc002nkg.2	+						UPF1_uc002nkf.2_Intron	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1						cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						ctcaaaaaaataaaggaaTGG	0.229													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	22529497	22529499	+	IGR	DEL	ACT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22529497_22529499delACT								ZNF676 (149744 upstream) : ZNF98 (44400 downstream)																							gatatgactcacttcttctgcct	0.000													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	28441374	28441375	+	IGR	INS	-	A	A	rs67172382		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:28441374_28441375insA								LOC148189 (156526 upstream) : None (None downstream)																							ttgcttactgtaaaaaaaaaaa	0.173													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	29053799	29053800	+	Intron	INS	-	T	T	rs144876403	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:29053799_29053800insT	uc002nsa.1	-											Homo sapiens cDNA clone IMAGE:5297319, with apparent retained intron.																		TCAGAGCCCTGTTTTTTGTGGG	0.490													5	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	29310849	29310850	+	IGR	INS	-	GTGT	GTGT	rs71938183		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:29310849_29310850insGTGT								None (None upstream) : LOC148145 (145190 downstream)																							acatagttaccgtgtgtgtgtg	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	29813642	29813643	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:29813642_29813643insA	uc002nse.1	-											Homo sapiens cDNA FLJ37474 fis, clone BRAWH2012619.																		gcctcagcctcccgagtagctg	0.000													4	2	---	---	---	---	
ZNF536	9745	broad.mit.edu	37	19	30915529	30915529	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:30915529delA	uc002nsu.1	+						ZNF536_uc010edd.1_Intron	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GGATGGATGCAAAAAAAAATA	0.498													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	31307011	31307026	+	IGR	DEL	TCCTTCCTTTCTTCCC	-	-	rs143515411	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31307011_31307026delTCCTTCCTTTCTTCCC								ZNF536 (258046 upstream) : DKFZp566F0947 (333757 downstream)																							cctctctccttccttcctttcttccctccttccttt	0.000													2	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	31359610	31359611	+	IGR	INS	-	G	G	rs72542947	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31359610_31359611insG								ZNF536 (310645 upstream) : DKFZp566F0947 (281172 downstream)																							GACAACTTTAATAAAGTCCTTC	0.450													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	32277861	32277862	+	IGR	INS	-	GT	GT	rs71335143		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:32277861_32277862insGT								TSHZ3 (437671 upstream) : ZNF507 (558652 downstream)																							tacgctcattggtgtgtgtgtg	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	34019404	34019405	+	IGR	DEL	AC	-	-	rs74174671		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34019404_34019405delAC								PEPD (6603 upstream) : CHST8 (93456 downstream)																							GAGAACCTGGACACAGTGGTTA	0.094													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	34453295	34453296	+	IGR	DEL	GA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34453295_34453296delGA								KCTD15 (146630 upstream) : LSM14A (210056 downstream)																							aggagagggggagagagagaga	0.040													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	34562100	34562100	+	IGR	DEL	T	-	-	rs35161902		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34562100delT								KCTD15 (255435 upstream) : LSM14A (101252 downstream)																							CCCATTTCAAttttttttttt	0.124													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	34637470	34637474	+	IGR	DEL	AAAGA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34637470_34637474delAAAGA								KCTD15 (330805 upstream) : LSM14A (25878 downstream)																							aaagggaaagaaagaaaagaaaaga	0.122													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	35113824	35113824	+	Intron	DEL	T	-	-	rs74183312		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35113824delT	uc002nvo.1	-											Homo sapiens cDNA FLJ36176 fis, clone TESTI2026491.																		ttcatctaggttttttttttt	0.000													4	4	---	---	---	---	
LOC100128675	100128675	broad.mit.edu	37	19	35596483	35596500	+	Intron	DEL	CACCATCACCATCATCAT	-	-	rs143642353		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35596483_35596500delCACCATCACCATCATCAT	uc010xsi.1	-						LOC100128675_uc002nxu.2_Intron	NR_024562				SubName: Full=cDNA FLJ57934;												0						tcaccatcaccaccatcaccatcatcatcaccaccacc	0.000													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	35963561	35963561	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35963561delT								FFAR2 (20894 upstream) : KRTDAP (14669 downstream)																							ATATCTCTCCTGCAACCTTTC	0.124													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	35965661	35965662	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35965661_35965662insA								FFAR2 (22994 upstream) : KRTDAP (12568 downstream)																							aattccatctcaaaaaaaaaaa	0.257													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	36464068	36464068	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36464068delA								LRFN3 (27973 upstream) : SDHAF1 (22033 downstream)																							caaggtcaggagatcgagacc	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	36989461	36989463	+	IGR	DEL	AAC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36989461_36989463delAAC								ZNF566 (8998 upstream) : ZNF260 (12131 downstream)																							AACCAAAACAAACAACAACAACA	0.236													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	37673417	37673417	+	RNA	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37673417delA	uc002ofp.1	-	1		c.1504delT								Homo sapiens cDNA FLJ33255 fis, clone ASTRO2005553.																		GAAGGGAGGTAATGGGTGAGC	0.433													4	2	---	---	---	---	
ZNF569	148266	broad.mit.edu	37	19	37921097	37921097	+	Intron	DEL	A	-	-	rs74174462		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37921097delA	uc002ogi.2	-						ZNF569_uc002ogh.2_Intron|ZNF569_uc002ogj.2_Intron	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			accctatctcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
SIRT2	22933	broad.mit.edu	37	19	39384907	39384910	+	Intron	DEL	TTTG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39384907_39384910delTTTG	uc002ojt.1	-						SIRT2_uc010egh.1_5'Flank|SIRT2_uc010egi.1_5'Flank|SIRT2_uc002ojs.1_5'UTR|SIRT2_uc002oju.1_Intron|SIRT2_uc010egj.1_Intron|SIRT2_uc002ojv.1_Intron	NM_012237	NP_036369	Q8IXJ6	SIRT2_HUMAN	sirtuin 2 isoform 1						cell division|chromatin silencing at rDNA|chromatin silencing at telomere|mitosis|negative regulation of striated muscle tissue development|protein ADP-ribosylation|regulation of exit from mitosis|regulation of phosphorylation|response to redox state	chromatin silencing complex|cytoplasm|microtubule	histone acetyltransferase binding|histone deacetylase binding|NAD+ binding|NAD-dependent histone deacetylase activity|transcription factor binding|tubulin deacetylase activity|ubiquitin binding|zinc ion binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00125)|LUSC - Lung squamous cell carcinoma(53;0.00191)			aggctcattttttgtttgtttgtt	0.000													4	2	---	---	---	---	
SIRT2	22933	broad.mit.edu	37	19	39389423	39389423	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39389423delC	uc002ojt.1	-						SIRT2_uc002oju.1_Intron|SIRT2_uc010egj.1_Intron|SIRT2_uc002ojv.1_Intron|NFKBIB_uc010egk.1_5'Flank|NFKBIB_uc002ojw.2_5'Flank|NFKBIB_uc002ojx.2_5'Flank|NFKBIB_uc002ojy.2_5'Flank	NM_012237	NP_036369	Q8IXJ6	SIRT2_HUMAN	sirtuin 2 isoform 1						cell division|chromatin silencing at rDNA|chromatin silencing at telomere|mitosis|negative regulation of striated muscle tissue development|protein ADP-ribosylation|regulation of exit from mitosis|regulation of phosphorylation|response to redox state	chromatin silencing complex|cytoplasm|microtubule	histone acetyltransferase binding|histone deacetylase binding|NAD+ binding|NAD-dependent histone deacetylase activity|transcription factor binding|tubulin deacetylase activity|ubiquitin binding|zinc ion binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00125)|LUSC - Lung squamous cell carcinoma(53;0.00191)			ttgtttctggccCTGACTTAC	0.035													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	40626686	40626700	+	IGR	DEL	AATGAAATGAAATGA	-	-	rs60681206		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40626686_40626700delAATGAAATGAAATGA								ZNF780A (29841 upstream) : MAP3K10 (70951 downstream)																							gaaatgaaataatgaaatgaaatgaaatgaaatga	0.000													4	2	---	---	---	---	
ARHGEF1	9138	broad.mit.edu	37	19	42418768	42418768	+	Intron	DEL	T	-	-	rs112019773	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42418768delT	uc002osc.2	+									Q92888	ARHG1_HUMAN	SubName: Full=ARHGEF1 protein; SubName: Full=Rho guanine nucleotide exchange factor (GEF) 1, isoform CRA_g;						cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		ctccctccccttccaccatct	0.000													4	2	---	---	---	---	
ARHGEF1	9138	broad.mit.edu	37	19	42421403	42421404	+	Intron	DEL	TC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42421403_42421404delTC	uc002osc.2	+									Q92888	ARHG1_HUMAN	SubName: Full=ARHGEF1 protein; SubName: Full=Rho guanine nucleotide exchange factor (GEF) 1, isoform CRA_g;						cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		GTTTCCCCCATCTCTCTCTCTG	0.332													4	2	---	---	---	---	
PVR	5817	broad.mit.edu	37	19	45161197	45161197	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45161197delG	uc002ozm.2	+						PVR_uc010ejs.2_Intron|PVR_uc010xxb.1_Intron|PVR_uc010xxc.1_Intron|PVR_uc002ozn.2_Intron	NM_006505	NP_006496	P15151	PVR_HUMAN	poliovirus receptor isoform alpha						adherens junction organization|cell adhesion|cell junction assembly|interspecies interaction between organisms|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|susceptibility to natural killer cell mediated cytotoxicity|susceptibility to T cell mediated cytotoxicity	cell junction|cell surface|cytoplasm|extracellular space|integral to membrane|nucleus	cell adhesion molecule binding|receptor activity				0	Lung NSC(12;0.00608)|all_lung(12;0.0148)	Medulloblastoma(540;0.0425)|Ovarian(192;0.0728)|Prostate(69;0.081)|all_neural(266;0.112)		Epithelial(262;0.000601)		CTCCCTGGGTGGGAAGAACAG	0.532											OREG0025540	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	6	---	---	---	---	
BCAM	4059	broad.mit.edu	37	19	45318174	45318175	+	Intron	INS	-	G	G			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45318174_45318175insG	uc002ozu.2	+						BCAM_uc002ozt.1_Intron	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1						cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				tgtttttttttttttttttttc	0.228													3	3	---	---	---	---	
PRKD2	25865	broad.mit.edu	37	19	47188783	47188784	+	Intron	DEL	AG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47188783_47188784delAG	uc002pfh.2	-						PRKD2_uc002pfd.2_Intron|PRKD2_uc010eks.2_Intron|PRKD2_uc010ekt.2_Intron|PRKD2_uc002pfe.2_Intron|PRKD2_uc002pff.2_Intron|PRKD2_uc002pfg.2_Intron|PRKD2_uc002pfi.2_Intron|PRKD2_uc002pfj.2_Intron|PRKD2_uc010xye.1_Intron|PRKD2_uc002pfk.2_Intron	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A						cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		AGAAATCTGCagagagagagag	0.243													4	2	---	---	---	---	
TMC4	147798	broad.mit.edu	37	19	54665054	54665055	+	Intron	DEL	TT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54665054_54665055delTT	uc010erf.2	-						LENG1_uc002qdm.2_5'Flank|TMC4_uc002qdn.2_Intron|TMC4_uc002qdo.2_Intron	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1							integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					TGTGCCTCCAtttttttttttt	0.307													4	2	---	---	---	---	
TNNT1	7138	broad.mit.edu	37	19	55645049	55645049	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55645049delA	uc002qjb.3	-						TNNT1_uc002qiz.3_Intron|TNNT1_uc002qja.3_Intron|TNNT1_uc002qjc.3_Intron|TNNT1_uc002qje.3_Intron|TNNT1_uc002qjd.3_Intron	NM_003283	NP_003274	P13805	TNNT1_HUMAN	troponin T1, skeletal, slow isoform a						muscle filament sliding|negative regulation of muscle contraction	cytosol|troponin complex	tropomyosin binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.047)		cagtctcaataaaaaaaaaaa	0.189													4	2	---	---	---	---	
ZSCAN5A	79149	broad.mit.edu	37	19	56862360	56862361	+	Intron	INS	-	C	C			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56862360_56862361insC	uc002qmr.2	-							NM_024303	NP_077279	Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A						viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						ccaattgctgtccccccccaac	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	1687243	1687243	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1687243delC								SIRPG (48818 upstream) : SIRPA (187570 downstream)																							CACAGCAGGGCCCACTGGGGA	0.502													2	5	---	---	---	---	
C20orf194	25943	broad.mit.edu	37	20	3313106	3313106	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3313106delT	uc002wii.2	-						C20orf194_uc002wij.3_Intron|C20orf194_uc002wik.2_Intron|C20orf194_uc010gay.1_Intron	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943												0						ATAAAttttcttttttttttt	0.134													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	4563807	4563807	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4563807delG								ADRA1D (334148 upstream) : PRNP (102990 downstream)																							tgagctgggtggttgcttaga	0.050													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	11991191	11991192	+	IGR	INS	-	T	T	rs28510202		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11991191_11991192insT								BTBD3 (83949 upstream) : SPTLC3 (998435 downstream)																							GAATATCtttcttttttttttt	0.178													3	3	---	---	---	---	
KIF16B	55614	broad.mit.edu	37	20	16470232	16470233	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:16470232_16470233insT	uc002wpg.1	-						KIF16B_uc010gch.1_Intron|KIF16B_uc010gci.1_Intron|KIF16B_uc010gcj.1_Intron	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23						cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						atcccagctacctgggaggctg	0.000													4	2	---	---	---	---	
PCSK2	5126	broad.mit.edu	37	20	17441149	17441149	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17441149delA	uc002wpm.2	+						PCSK2_uc002wpl.2_Intron|PCSK2_uc010zrm.1_Intron|PCSK2_uc002wpn.2_5'Flank	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2						enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	atagatatggagggaAATACA	0.179													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	24392038	24392039	+	IGR	INS	-	A	A	rs148385252	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24392038_24392039insA								GGTLC1 (422622 upstream) : TMEM90B (57796 downstream)																							TATCACACCAGAAAAAATACCA	0.455													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	25047764	25047767	+	IGR	DEL	CACA	-	-	rs145014967		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25047764_25047767delCACA								ACSS1 (8148 upstream) : VSX1 (4365 downstream)																							acacacacaccacacacacacacc	0.044													4	2	---	---	---	---	
FAM182B	728882	broad.mit.edu	37	20	25834332	25834333	+	Intron	INS	-	G	G	rs113719134		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25834332_25834333insG	uc002wvd.1	-						FAM182B_uc002wve.2_Intron					Homo sapiens cDNA FLJ30282 fis, clone BRACE2002803.												0						ctattaaaaaaaaaaagataga	0.277													3	3	---	---	---	---	
FAM182B	728882	broad.mit.edu	37	20	25837005	25837005	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25837005delA	uc002wvd.1	-						FAM182B_uc002wve.2_Intron					Homo sapiens cDNA FLJ30282 fis, clone BRACE2002803.												0						aaaaaggaacaagggcgaatc	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26080035	26080037	+	IGR	DEL	AAG	-	-	rs113138903		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26080035_26080037delAAG								FAM182A (12483 upstream) : C20orf191 (4016 downstream)																							AGCCTAATCTAAGAAGATGCCTT	0.414													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26301625	26301625	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26301625delT								MIR663 (112711 upstream) : None (None downstream)																							gacagaagcattctcagaaac	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29435343	29435343	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29435343delT								None (None upstream) : FRG1B (176536 downstream)																							gaacatgttattttaattgtt	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29467912	29467912	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29467912delT								None (None upstream) : FRG1B (143967 downstream)																							gtcagaagtattttttatcat	0.100													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	31273000	31273000	+	IGR	DEL	A	-	-	rs113165743		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31273000delA								C20orf203 (11257 upstream) : COMMD7 (17494 downstream)																							CTGATGCAGGAAAAAAAAAAA	0.095													4	2	---	---	---	---	
GDF5	8200	broad.mit.edu	37	20	33947604	33947604	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33947604delC	uc010gfc.1	-						UQCC_uc010zuy.1_Intron|UQCC_uc002xcd.2_Intron|UQCC_uc010zuz.1_Intron|UQCC_uc010zva.1_Intron|UQCC_uc002xce.2_Intron|UQCC_uc002xcg.2_Intron|UQCC_uc010gfb.2_Intron|UQCC_uc010zvb.1_Intron|UQCC_uc002xcf.2_Intron|UQCC_uc002xci.1_Intron|UQCC_uc010gfd.1_Intron	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein						cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			TACACTCAAGCCCCAGCAGTG	0.493													4	2	---	---	---	---	
DHX35	60625	broad.mit.edu	37	20	37631822	37631822	+	Intron	DEL	C	-	-	rs73622053		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37631822delC	uc002xjh.2	+						DHX35_uc010zwa.1_Intron|DHX35_uc010zwb.1_Intron|DHX35_uc010zwc.1_Intron	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35							catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AGGTCCATGTCCTGCACACAT	0.388													3	3	---	---	---	---	
LPIN3	64900	broad.mit.edu	37	20	39989092	39989093	+	3'UTR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39989092_39989093insA	uc002xjx.2	+	20					LPIN3_uc010ggh.2_3'UTR|LPIN3_uc010zwf.1_RNA|EMILIN3_uc002xjy.1_3'UTR	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3						fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				GGAAGGAAAGGAAAAGGATAAA	0.545													4	2	---	---	---	---	
DDX27	55661	broad.mit.edu	37	20	47843199	47843209	+	Intron	DEL	TTTTTATTTTG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47843199_47843209delTTTTTATTTTG	uc002xuh.2	+							NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27							nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TCATTTttattttttattttgtagagatagg	0.190													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	50884309	50884310	+	IGR	INS	-	CTTCCTTC	CTTCCTTC			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50884309_50884310insCTTCCTTC								ZFP64 (75785 upstream) : TSHZ2 (704567 downstream)																							ttccttccttccttccttcctt	0.114													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	51031939	51031941	+	IGR	DEL	AAC	-	-	rs11468518		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51031939_51031941delAAC								ZFP64 (223415 upstream) : TSHZ2 (556936 downstream)																							tccaagaaagaacaacattacaa	0.172													4	2	---	---	---	---	
TSHZ2	128553	broad.mit.edu	37	20	51832063	51832063	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51832063delT	uc002xwo.2	+							NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2						multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GCATCCTAGATTTTTTTTTTG	0.338													5	3	---	---	---	---	
TFAP2C	7022	broad.mit.edu	37	20	55208253	55208253	+	Intron	DEL	T	-	-	rs72357061		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55208253delT	uc002xya.2	+						TFAP2C_uc010zzi.1_Intron	NM_003222	NP_003213	Q92754	AP2C_HUMAN	transcription factor AP-2 gamma						cell-cell signaling|male gonad development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Colorectal(105;0.229)			actcttattattttttttttt	0.179													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	55591105	55591106	+	IGR	DEL	CT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55591105_55591106delCT								TFAP2C (376769 upstream) : BMP7 (152703 downstream)																							tccttccttcctctctctctct	0.094													4	2	---	---	---	---	
PSMA7	5688	broad.mit.edu	37	20	60714435	60714435	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60714435delG	uc002ybx.1	-						PSMA7_uc002yby.1_Intron	NM_002792	NP_002783	O14818	PSA7_HUMAN	proteasome alpha 7 subunit						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			TTCACTCCTAGAAAAACTCAC	0.398													4	2	---	---	---	---	
LAMA5	3911	broad.mit.edu	37	20	60915092	60915094	+	Intron	DEL	GAG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60915092_60915094delGAG	uc002ycq.2	-							NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor						angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACAGAGGAGTGAGGACGGAAGGC	0.562													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	61661530	61661530	+	Intron	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61661530delA	uc002yec.1	+											Homo sapiens cDNA FLJ46471 fis, clone THYMU3023394.																		AGTGTTTCACAAATGGTGCAG	0.542													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	62676726	62676727	+	IGR	INS	-	G	G	rs142324576	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62676726_62676727insG								NCRNA00176 (5412 upstream) : SOX18 (2354 downstream)																							GGGGTTGCAGTGGGGGTGAGGA	0.614													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10754157	10754158	+	IGR	INS	-	T	T	rs137981587		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10754157_10754158insT								None (None upstream) : TPTE (152585 downstream)																							ttgaaactctatttttgtagaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10789188	10789189	+	IGR	INS	-	AGTGT	AGTGT	rs113163427		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10789188_10789189insAGTGT								None (None upstream) : TPTE (117554 downstream)																							gagtggagtggagtggagtgga	0.000													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10794940	10794941	+	IGR	INS	-	GAGTA	GAGTA	rs62219549		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10794940_10794941insGAGTA								None (None upstream) : TPTE (111802 downstream)																							aaattggagtggagtggagtgg	0.000													4	2	---	---	---	---	
BAGE2	85319	broad.mit.edu	37	21	11056663	11056665	+	Intron	DEL	TTA	-	-	rs143004257		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11056663_11056665delTTA	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)		AGTATTTAGTTTATTATTTTACA	0.271													6	5	---	---	---	---	
BAGE2	85319	broad.mit.edu	37	21	11069159	11069160	+	Intron	DEL	TA	-	-	rs58532396		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11069159_11069160delTA	uc002yit.1	-						BAGE_uc002yix.2_Intron	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		aataatatattaaaaaaaactt	0.000													6	3	---	---	---	---	
BAGE2	85319	broad.mit.edu	37	21	11081137	11081137	+	Intron	DEL	C	-	-	rs67683712		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11081137delC	uc002yit.1	-						BAGE_uc002yix.2_Intron	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		aaaaaaaaaacaaaaCTAAgc	0.005													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	11136001	11136010	+	IGR	DEL	GGCACCTGCC	-	-	rs71973277		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11136001_11136010delGGCACCTGCC								BAGE (37064 upstream) : None (None downstream)																							tgggattacaggcacctgccaccacccccg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	11184758	11184759	+	IGR	INS	-	A	A	rs138233859		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11184758_11184759insA								BAGE (85821 upstream) : None (None downstream)																							tctcaaaaaacaaaaaacaaaa	0.000													1	5	---	---	---	---	
C21orf99	149992	broad.mit.edu	37	21	14425970	14425972	+	Intron	DEL	CTC	-	-	rs113465228		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:14425970_14425972delCTC	uc002yja.3	+							NR_026916				Homo sapiens C21orf99 protein (C21orf99) mRNA, complete cds.												0						cacgctgttactcctccttacaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	16244063	16244064	+	IGR	DEL	GT	-	-	rs67059536		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:16244063_16244064delGT								SAMSN1 (288340 upstream) : NRIP1 (89492 downstream)																							gttcaggtcagtgtgtgtgtgt	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	16718065	16718066	+	IGR	INS	-	T	T	rs34900978		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:16718065_16718066insT								NRIP1 (280939 upstream) : USP25 (384430 downstream)																							TTGTTCGCACAttttttttttt	0.168													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	19009866	19009867	+	IGR	INS	-	TCCC	TCCC			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:19009866_19009867insTCCC								BTG3 (24598 upstream) : C21orf91 (139856 downstream)																							AACACTCTTTttccctccctcc	0.228													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	20549285	20549286	+	IGR	INS	-	GCTAACGAATAAA	GCTAACGAATAAA	rs150958698	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:20549285_20549286insGCTAACGAATAAA								TMPRSS15 (773315 upstream) : None (None downstream)																							agctgaatagggctaagcagag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	28720611	28720612	+	IGR	INS	-	G	G	rs145308229		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:28720611_28720612insG								ADAMTS5 (381172 upstream) : NCRNA00113 (374086 downstream)																							aaaaaaaaaaaaaagaaagaga	0.064													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	28739459	28739459	+	Intron	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:28739459delG	uc002ymh.2	-											Homo sapiens, clone IMAGE:5227164, mRNA.																		TGACTTGCCTGGGTGATGGTC	0.493													19	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	33110491	33110491	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:33110491delT								SFRS15 (6060 upstream) : HUNK (135137 downstream)																							tttcttttccttttttttttg	0.080													4	2	---	---	---	---	
ITSN1	6453	broad.mit.edu	37	21	35260248	35260248	+	Intron	DEL	T	-	-	rs11343877		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:35260248delT	uc002yta.1	+						DONSON_uc002ysn.1_Intron|ITSN1_uc002ytb.1_Intron|ITSN1_uc002ytj.2_Intron|ITSN1_uc010gmm.1_Intron	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						TGGGGTTGGGTTTTTTTTTTT	0.279													2	6	---	---	---	---	
RUNX1	861	broad.mit.edu	37	21	37076640	37076641	+	Intron	INS	-	A	A	rs75173363		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37076640_37076641insA	uc002yut.1	-									Q01196	RUNX1_HUMAN	Synthetic construct DNA, clone: pF1KB4846, Homo sapiens RUNX1 gene for runt-related transcription factor 1, complete cds, without stop codon, in Flexi system.						myeloid cell differentiation|negative regulation of granulocyte differentiation|positive regulation of angiogenesis|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus|nucleus	ATP binding|calcium ion binding|DNA binding|DNA binding|protein binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			haematopoietic_and_lymphoid_tissue(383)|lung(2)|ovary(1)|central_nervous_system(1)	387						cctgtctctacaaaaaaaaaaa	0.000			T	RPL22|MDS1|EVI1|CBFA2T3|CBFA2T1|ETV6|LAF4	AML|preB- ALL|T-ALL				Platelet_disorder_associated_with_Myeloid_Malignancies				4	2	---	---	---	---	
MX1	4599	broad.mit.edu	37	21	42828298	42828298	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:42828298delC	uc002yzh.2	+						MX1_uc002yzi.2_Intron|MX1_uc010goq.2_Intron	NM_001144925	NP_001138397	P20591	MX1_HUMAN	myxovirus resistance protein 1						induction of apoptosis|response to virus|type I interferon-mediated signaling pathway	cytosol	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(19;3.18e-07)|all_epithelial(19;0.0277)				ccagggcaggccagcaggaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	43720386	43720387	+	RNA	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:43720386_43720387delGT	uc002zau.2	+	1		c.1283_1284delGT								Homo sapiens EST from clone 208499, full insert.																		ACAGGGGCTGgtgtgtgtgtgt	0.317													4	2	---	---	---	---	
TFF2	7032	broad.mit.edu	37	21	43770903	43770903	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:43770903delT	uc002zaw.2	-							NM_005423	NP_005414	Q03403	TFF2_HUMAN	trefoil factor 2 precursor						digestion	extracellular region				pancreas(1)	1						CCATTCCCCCTCTCAAGTTAA	0.443													4	2	---	---	---	---	
PDE9A	5152	broad.mit.edu	37	21	44189671	44189672	+	Intron	INS	-	AT	AT			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44189671_44189672insAT	uc002zbm.2	+						PDE9A_uc002zbn.2_Intron|PDE9A_uc002zbo.2_Intron|PDE9A_uc002zbp.2_Intron|PDE9A_uc002zbq.2_Intron|PDE9A_uc002zbs.2_Intron|PDE9A_uc002zbr.2_Intron|PDE9A_uc002zbt.2_Intron|PDE9A_uc002zbu.2_Intron|PDE9A_uc002zbv.2_Intron|PDE9A_uc002zbw.2_Intron|PDE9A_uc002zbx.2_Intron|PDE9A_uc002zby.2_Intron|PDE9A_uc002zbz.2_Intron|PDE9A_uc002zca.2_Intron|PDE9A_uc002zcb.2_Intron|PDE9A_uc002zcc.2_Intron|PDE9A_uc002zcd.2_Intron|PDE9A_uc002zce.2_Intron|PDE9A_uc002zcf.2_Intron|PDE9A_uc002zcg.2_Intron|PDE9A_uc002zch.2_Intron	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a						platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						cacacaggcacacacacacaca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	44825787	44825787	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44825787delA								CRYAA (232874 upstream) : SIK1 (8611 downstream)																							atcagtgaagaaagggtcagc	0.000													4	2	---	---	---	---	
HSF2BP	11077	broad.mit.edu	37	21	45051845	45051845	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45051845delC	uc002zdi.2	-						HSF2BP_uc011aey.1_Intron	NM_007031	NP_008962	O75031	HSF2B_HUMAN	heat shock transcription factor 2 binding						spermatogenesis|transcription from RNA polymerase II promoter	cytosol	binding			skin(1)	1				STAD - Stomach adenocarcinoma(101;0.18)		cacacacactccccccccaca	0.134													3	4	---	---	---	---	
PWP2	5822	broad.mit.edu	37	21	45547736	45547737	+	Intron	INS	-	A	A	rs68131283		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45547736_45547737insA	uc002zeb.2	+							NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog							cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		ACTGTTTCTTTaaaaaaaaaaa	0.460													4	2	---	---	---	---	
UBE2G2	7327	broad.mit.edu	37	21	46192398	46192398	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46192398delT	uc002zfy.2	-						UBE2G2_uc002zfx.2_Intron	NM_003343	NP_003334	P60604	UB2G2_HUMAN	ubiquitin-conjugating enzyme E2G 2 isoform 1						protein K48-linked ubiquitination	cytosol	ATP binding|protein binding|ubiquitin-protein ligase activity			breast(3)|central_nervous_system(1)	4				Colorectal(79;0.0638)		GCCGCCTTCCTTTCCCACACC	0.587													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	46665717	46665718	+	Intron	INS	-	GGG	GGG	rs139554271	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46665717_46665718insGGG	uc002zgz.1	+											Homo sapiens C21orf89 protein (C21orf89) mRNA, complete cds.																		GGGCTAGTGGTGGTAAGAGGCT	0.475													3	4	---	---	---	---	
SLC19A1	6573	broad.mit.edu	37	21	46953196	46953201	+	Intron	DEL	TGGAGC	-	-	rs67597684		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46953196_46953201delTGGAGC	uc002zhl.1	-						SLC19A1_uc010gpy.1_Intron|SLC19A1_uc011aft.1_Intron|SLC19A1_uc002zhm.1_Intron|SLC19A1_uc010gpz.1_Intron	NM_194255	NP_919231	P41440	S19A1_HUMAN	solute carrier family 19 member 1						folic acid metabolic process	integral to plasma membrane|membrane fraction	folic acid binding|folic acid transporter activity|methotrexate transporter activity|reduced folate carrier activity				0				Colorectal(79;0.0569)|READ - Rectum adenocarcinoma(84;0.172)		CATGGGAACGTGGAGCTGGGCACGGG	0.617													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	16121731	16121731	+	IGR	DEL	A	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16121731delA								None (None upstream) : POTEH (134601 downstream)																							GGCAATTTCCAAAAAAAAAAA	0.279													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	17229222	17229223	+	RNA	DEL	CC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17229222_17229223delCC	uc002zlu.2	-	1		c.106_107delGG								Homo sapiens cDNA clone IMAGE:3920443, partial cds.																		tccccggactccgtctgctgtt	0.000													5	3	---	---	---	---	
RAB36	9609	broad.mit.edu	37	22	23503926	23503926	+	3'UTR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23503926delC	uc002zwv.1	+	11					RAB36_uc010gtw.1_3'UTR	NM_004914	NP_004905	O95755	RAB36_HUMAN	RAB36, member RAS oncogene family						protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.155)		AGTCACTTGTCCGTTGCAGGT	0.637													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	29233300	29233300	+	IGR	DEL	G	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29233300delG								XBP1 (36740 upstream) : ZNRF3 (46590 downstream)																							GAGGACAGGTGGGCAGACAGG	0.468													4	2	---	---	---	---	
EMID1	129080	broad.mit.edu	37	22	29639136	29639136	+	Intron	DEL	T	-	-	rs66849612		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29639136delT	uc003aen.2	+						EMID1_uc003aem.2_Intron|EMID1_uc003aeo.2_Intron|EMID1_uc003aep.2_Intron	NM_133455	NP_597712	Q96A84	EMID1_HUMAN	EMI domain containing 1							collagen					0						gcttgagctcttgttttgcca	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	30615987	30615988	+	IGR	DEL	TC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30615987_30615988delTC								HORMAD2 (42929 upstream) : LIF (20454 downstream)																							tcttcttctttctctctctctc	0.000													5	3	---	---	---	---	
EIF4ENIF1	56478	broad.mit.edu	37	22	31841288	31841291	+	Intron	DEL	AATC	-	-	rs67623889		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31841288_31841291delAATC	uc003akz.1	-						EIF4ENIF1_uc003akx.1_Intron|EIF4ENIF1_uc003aky.1_Intron|EIF4ENIF1_uc003ala.1_Intron|EIF4ENIF1_uc003alb.1_Intron|EIF4ENIF1_uc003akw.1_Intron	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E							nucleus	protein binding|protein transporter activity			ovary(1)	1						TCAAATACAGAATCAAGAGTTTCA	0.480													6	3	---	---	---	---	
DEPDC5	9681	broad.mit.edu	37	22	32256798	32256798	+	Intron	DEL	C	-	-	rs71665146		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32256798delC	uc003als.2	+						DEPDC5_uc011als.1_Intron|DEPDC5_uc011alu.1_Intron|DEPDC5_uc011alv.1_Intron|DEPDC5_uc003alt.2_Intron|DEPDC5_uc003alu.2_Intron|DEPDC5_uc003alv.2_Intron|DEPDC5_uc011alw.1_Intron|DEPDC5_uc003alw.2_Intron|DEPDC5_uc011alx.1_Intron|DEPDC5_uc010gwk.2_Intron|DEPDC5_uc011aly.1_Intron	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1						intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						CATCTGGCTGCCCATGTTTAG	0.512													3	5	---	---	---	---	
SYN3	8224	broad.mit.edu	37	22	33240699	33240700	+	Intron	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:33240699_33240700insT	uc003amx.2	-						SYN3_uc003amy.2_Intron|SYN3_uc003amz.2_Intron|TIMP3_uc003anb.2_Intron	NM_003490	NP_003481	O14994	SYN3_HUMAN	synapsin III isoform IIIa						neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1						cttcttcttccttttttttttt	0.124													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	35979539	35979540	+	IGR	INS	-	A	A	rs145516347	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:35979539_35979540insA								RASD2 (29496 upstream) : MB (23272 downstream)																							GAGGGACTGGCAGGGAGGTGGG	0.485											OREG0026509	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	3	---	---	---	---	
CYTH4	27128	broad.mit.edu	37	22	37704503	37704504	+	Intron	DEL	AA	-	-	rs71776676		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37704503_37704504delAA	uc003arf.2	+						CYTH4_uc003are.2_Intron|CYTH4_uc011amw.1_Intron|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4						regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						gcatgtatataagtgtgtgtgt	0.119													3	4	---	---	---	---	
KDELR3	11015	broad.mit.edu	37	22	38866674	38866674	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38866674delT	uc003avv.2	+						KDELR3_uc003avu.2_Intron	NM_006855	NP_006846	O43731	ERD23_HUMAN	KDEL receptor 3 isoform a						protein retention in ER lumen|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane	ER retention sequence binding|receptor activity			ovary(2)	2	Melanoma(58;0.0286)					tgggcctgtgttttcccattt	0.368													4	2	---	---	---	---	
LOC646851	646851	broad.mit.edu	37	22	39017924	39017924	+	Intron	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39017924delC	uc011anx.1	-						LOC646851_uc011anw.1_Intron			B7Z7C6	B7Z7C6_HUMAN	SubName: Full=Putative uncharacterized protein ENSP00000348086;												0						CCCTCTGAATCCCCCCCACTG	0.562													1	6	---	---	---	---	
CACNA1I	8911	broad.mit.edu	37	22	40082950	40082951	+	3'UTR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40082950_40082951insT	uc003ayc.2	+	37					CACNA1I_uc003ayd.2_3'UTR	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,						axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GTGTGTGTGTGTTTTTTTTCCT	0.520													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	40091819	40091821	+	IGR	DEL	TGT	-	-	rs149112257		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40091819_40091821delTGT								CACNA1I (6081 upstream) : ENTHD1 (47229 downstream)																							aaataataaatgttgttgtttta	0.084													3	4	---	---	---	---	
SLC25A17	10478	broad.mit.edu	37	22	41183702	41183702	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41183702delT	uc003azc.2	-						SLC25A17_uc010gyg.2_Intron|SLC25A17_uc011aou.1_Intron|SLC25A17_uc003azd.2_Intron|SLC25A17_uc011aov.1_Intron	NM_006358	NP_006349	O43808	PM34_HUMAN	solute carrier family 25 (mitochondrial carrier;						fatty acid alpha-oxidation	integral to plasma membrane|mitochondrial inner membrane|peroxisomal membrane	adenine nucleotide transmembrane transporter activity|protein binding				0						TCTTTTCTTCTTTTTTTTTTA	0.318													4	2	---	---	---	---	
SERHL2	253190	broad.mit.edu	37	22	42962564	42962565	+	Intron	INS	-	A	A	rs147819513		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42962564_42962565insA	uc003bcr.2	+						SERHL_uc011apm.1_Intron|SERHL2_uc011apn.1_Intron|SERHL2_uc010gyz.2_Intron|SERHL2_uc010gyy.2_Intron|SERHL2_uc011apo.1_Intron|RRP7B_uc003bcs.2_Intron	NM_014509	NP_055324	Q9H4I8	SEHL2_HUMAN	serine hydrolase-like 2							perinuclear region of cytoplasm|peroxisome	hydrolase activity				0						tccatctcaagaaaaaaaaaac	0.005													4	2	---	---	---	---	
SCUBE1	80274	broad.mit.edu	37	22	43602657	43602658	+	Intron	INS	-	AAG	AAG	rs138016510	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43602657_43602658insAAG	uc003bdt.1	-							NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1						adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				GAGGTGGGGGAAAGAAGGGGCC	0.658													4	3	---	---	---	---	
PARVG	64098	broad.mit.edu	37	22	44594739	44594740	+	Intron	INS	-	ATCC	ATCC	rs142865703	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44594739_44594740insATCC	uc011aqe.1	+						PARVG_uc003bep.2_Intron|PARVG_uc011aqf.1_Intron|PARVG_uc003beq.2_Intron|PARVG_uc003ber.2_Intron	NM_001137605	NP_001131077	Q9HBI0	PARVG_HUMAN	parvin, gamma						cell-matrix adhesion	cytoplasm|cytoskeleton|focal adhesion	actin binding				0		Ovarian(80;0.024)|all_neural(38;0.0299)				TATGTCTGCCTatccatccatc	0.218													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	44725321	44725322	+	IGR	DEL	AC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44725321_44725322delAC								KIAA1644 (16590 upstream) : LDOC1L (163128 downstream)																							CGAGAATGGGacacacacacac	0.550													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	48034401	48034402	+	Intron	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:48034401_48034402insA	uc003bik.1	+						uc003bij.2_Intron					Homo sapiens cDNA FLJ35788 fis, clone TESTI2005683.																		ctttataccagaaaaaaaaaat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	48864795	48864795	+	IGR	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:48864795delT								None (None upstream) : FAM19A5 (20493 downstream)																							TCCTCAtttcttttttttttt	0.194													4	2	---	---	---	---	
FAM19A5	25817	broad.mit.edu	37	22	48985798	48985799	+	Intron	INS	-	GT	GT	rs150238601	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:48985798_48985799insGT	uc003bim.3	+						FAM19A5_uc003bio.3_Intron	NM_001082967	NP_001076436	Q7Z5A7	F19A5_HUMAN	family with sequence similarity 19 (chemokine							extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)		TTGCAGCCGACgtgtgtgtgtg	0.381													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	49561155	49561156	+	IGR	INS	-	ATCT	ATCT	rs139845685	by1000genomes	TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:49561155_49561156insATCT								FAM19A5 (413413 upstream) : C22orf34 (247020 downstream)																							GGCCAACAACCGCAGTGAGGGT	0.629													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	510134	510141	+	IGR	DEL	CATCCATC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:510134_510141delCATCCATC								PPP2R3B (162507 upstream) : SHOX (74938 downstream)																							tccaaactttcatccatccatccatcca	0.000													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	1211255	1211256	+	IGR	INS	-	GT	GT			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1211255_1211256insGT								SHOX (591110 upstream) : CRLF2 (103631 downstream)																							catgcatgctagtgtgtgtgtg	0.139													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	1701910	1701911	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1701910_1701911insA								P2RY8 (45873 upstream) : SFRS17A (8575 downstream)																							ACGCTGATATTAAAAAAAAAAA	0.421													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	2121207	2121208	+	IGR	DEL	TT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2121207_2121208delTT								ASMT (359234 upstream) : DHRSX (16349 downstream)																							TAACGCAGTGTTTTTTTTTTTT	0.262													4	2	---	---	---	---	
DHRSX	207063	broad.mit.edu	37	X	2150373	2150374	+	Intron	INS	-	AACAAC	AACAAC			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2150373_2150374insAACAAC	uc004cqf.3	-							NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked								binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				CTTGTTTTGAAAACAACAACAA	0.396													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	2563308	2563312	+	Intron	DEL	AAAAG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2563308_2563312delAAAAG	uc004cqj.1	+											Homo sapiens cDNA FLJ13471 fis, clone PLACE1003566.																		aaaaaaaaaaaaaaGAGAGAGAGAA	0.215													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	33842172	33842172	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:33842172delC								DMD (484446 upstream) : FAM47A (305703 downstream)																							ataatgacttccagctccatc	0.000													4	2	---	---	---	---	
PAGE4	9506	broad.mit.edu	37	X	49595765	49595765	+	Intron	DEL	T	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:49595765delT	uc004don.1	+							NM_007003	NP_008934	O60829	GAGC1_HUMAN	G antigen, family C, 1												0	Ovarian(276;0.236)					AACCATCCCCTAAAAATTGGC	0.383													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	58494457	58494458	+	IGR	DEL	AC	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:58494457_58494458delAC								ZXDA (557390 upstream) : None (None downstream)																							cagtttggaaacagtctttttg	0.005													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	68100772	68100772	+	IGR	DEL	C	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:68100772delC								EFNB1 (34743 upstream) : PJA1 (279810 downstream)																							GCCCTCCCTGCCCCCCCTTCC	0.567													4	2	---	---	---	---	
SLC16A2	6567	broad.mit.edu	37	X	73665009	73665010	+	Intron	DEL	GT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73665009_73665010delGT	uc004ebt.2	+							NM_006517	NP_006508	P36021	MOT8_HUMAN	solute carrier family 16, member 2							integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			breast(2)|ovary(1)	3					Pyruvic acid(DB00119)	TCTAAGTTGCGTGTGTGTGTGT	0.262													4	2	---	---	---	---	
IL9R	3581	broad.mit.edu	37	X	155238749	155238752	+	Intron	DEL	TGTG	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:155238749_155238752delTGTG	uc004fnv.1	+						IL9R_uc004fnu.1_Intron	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor						cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					tgtgtgtgtttgtgtgtgtgtgtc	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	10019294	10019304	+	IGR	DEL	AAACAAACAAA	-	-	rs34879187		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:10019294_10019304delAAACAAACAAA								TTTY22 (368440 upstream) : None (None downstream)																							aggaaaaaacaaacaaacaaaaaaacatgaa	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13444778	13444779	+	IGR	INS	-	T	T			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13444778_13444779insT								None (None upstream) : None (None downstream)																							CTCAAAGGTAATTTTTTCTTTA	0.327													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13456255	13456259	+	IGR	DEL	TTTCA	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13456255_13456259delTTTCA								None (None upstream) : None (None downstream)																							attccattcctttcacttccattcc	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13464362	13464363	+	IGR	INS	-	A	A			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13464362_13464363insA								None (None upstream) : None (None downstream)																							ccgccggtaccctgcagcatcc	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	28710359	28710360	+	IGR	INS	-	A	A	rs79634249		TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:28710359_28710360insA								None (None upstream) : None (None downstream)																							gaccatgtctcaaaaaaaaaaa	0.069													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	28814015	28814019	+	IGR	DEL	TGGAT	-	-			TCGA-43-3394-01	TCGA-43-3394-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:28814015_28814019delTGGAT								None (None upstream) : None (None downstream)																							tggagtggagtggattggagtggac	0.127													4	3	---	---	---	---	
